BC001368
 

Information on mRNA BC001368

Description: Homo sapiens cDNA clone IMAGE:3050898, partial cds.
Gene: n/a
Product: n/a
Author: Strausberg,R.L., Feingold,E.A., Grouse,L.H., Derge,J.G., Klausner,R.D., Collins,F.S., Wagner,L., Shenmen,C.M., Schuler,G.D., Altschul,S.F., Zeeberg,B., Buetow,K.H., Schaefer,C.F., Bhat,N.K., Hopkins,R.F., Jordan,H., Moore,T., Max,S.I., Wang,J., Hsieh,F., Diatchenko,L., Marusina,K., Farmer,A.A., Rubin,G.M., Hong,L., Stapleton,M., Soares,M.B., Bonaldo,M.F., Casavant,T.L., Scheetz,T.E., Brownstein,M.J., Usdin,T.B., Toshiyuki,S., Carninci,P., Prange,C., Raha,S.S., Loquellano,N.A., Peters,G.J., Abramson,R.D., Mullahy,S.J., Bosak,S.A., McEwan,P.J., McKernan,K.J., Malek,J.A., Gunaratne,P.H., Richards,S., Worley,K.C., Hale,S., Garcia,A.M., Gay,L.J., Hulyk,S.W., Villalon,D.K., Muzny,D.M., Sodergren,E.J., Lu,X., Gibbs,R.A., Fahey,J., Helton,E., Ketteman,M., Madan,A., Rodrigues,S., Sanchez,A., Whiting,M., Madan,A., Young,A.C., Shevchenko,Y., Bouffard,G.G., Blakesley,R.W., Touchman,J.W., Green,E.D., Dickson,M.C., Rodriguez,A.C., Grimwood,J., Schmutz,J., Myers,R.M., Butterfield,Y.S., Krzywinski,M.I., Skalska,U., Smailus,D.E., Schnerch,A., Schein,J.E., Jones,S.J. and Marra,M.A.
Organism: Homo sapiens
Tissue: skin, melanotic melanoma.
Development stage: n/a
Cell line: n/a
Sex: n/a
Library: NIH_MGC_20
Clone: IMAGE:3050898
CDS: n/a
Date: 2003-10-19
Version: 1
mRNA sequence: BC001368
Position: chr6:13618257-13618538

mRNA/Genomic Alignments

The alignment you clicked on is first in the table below.
BROWSER | SIZE IDENTITY CHROMOSOME  STRAND    START     END              QUERY      START  END  TOTAL
-----------------------------------------------------------------------------------------------------
browser |   282  100.0%          6     -  13618257  13618538              BC001368     1   282   304
browser |   282  100.0%          1     +  11036231  11036512              BC001368     1   282   304
browser |   282  100.0%          1     +  27921305  27921586              BC001368     1   282   304
browser |   282  100.0%          1     +  38870520  38870801              BC001368     1   282   304
browser |   282  100.0%          1     -  42542560  42542844              BC001368     1   282   304
browser |   282  100.0%          1     -  46773931  46774212              BC001368     1   282   304
browser |   282  100.0%          1     -  47874275  47874563              BC001368     1   282   304
browser |   282  100.0%          1     -  51918993  51919274              BC001368     1   282   304
browser |   282  100.0%          1     +  55117455  55117744              BC001368     1   282   304
browser |   282  100.0%          1     -  62686191  62686479              BC001368     1   282   304
browser |   282  100.0%          1     -  65302545  65302826              BC001368     1   282   304
browser |   282  100.0%          1     +  67362293  67362574              BC001368     1   282   304
browser |   282  100.0%          1     +  87870609  87870890              BC001368     1   282   304
browser |   282  100.0%          1     -  87895147  87895428              BC001368     1   282   304
browser |   282  100.0%          1     - 180323889 180324170              BC001368     1   282   304
browser |   282  100.0%          1     - 186279944 186280229              BC001368     1   282   304
browser |   282  100.0%          1     + 197349827 197350108              BC001368     1   282   304
browser |   282  100.0%         10     -  15647472  15647753              BC001368     1   282   304
browser |   282  100.0%         10     +  50322559  50322840              BC001368     1   282   304
browser |   282  100.0%         10     +  61816870  61817151              BC001368     1   282   304
browser |   282  100.0%         10     -  69238386  69238667              BC001368     1   282   304
browser |   282  100.0%         10     -  84716307  84716588              BC001368     1   282   304
browser |   282  100.0%         10     -  85166162  85166443              BC001368     1   282   304
browser |   282  100.0%         10     +  92823466  92823747              BC001368     1   282   304
browser |   282  100.0%         10     +  93347279  93347560              BC001368     1   282   304
browser |   281  100.0%         10     -  97449881  97450161              BC001368     2   282   304
browser |   282  100.0%         10     - 109533500 109533781              BC001368     1   282   304
browser |   282  100.0%         10     + 120650389 120650670              BC001368     1   282   304
browser |   282  100.0%         11     +   9263569   9263850              BC001368     1   282   304
browser |   282  100.0%         11     +  19260972  19261253              BC001368     1   282   304
browser |   282  100.0%         11     -  19914554  19914835              BC001368     1   282   304
browser |   282  100.0%         11     -  40985501  40985782              BC001368     1   282   304
browser |   282  100.0%         11     +  43757360  43757641              BC001368     1   282   304
browser |   282  100.0%         11     +  49403554  49403835              BC001368     1   282   304
browser |   281  100.0%         11     +  58694980  58695260              BC001368     2   282   304
browser |   282  100.0%         11     -  61340364  61340645              BC001368     1   282   304
browser |   282  100.0%         11     -  62653947  62654228              BC001368     1   282   304
browser |   282  100.0%         11     +  85087565  85087846              BC001368     1   282   304
browser |   282  100.0%         11     -  85733609  85733890              BC001368     1   282   304
browser |   282  100.0%         11     -  91298791  91299072              BC001368     1   282   304
browser |   282  100.0%         11     - 100808415 100808696              BC001368     1   282   304
browser |   282  100.0%         11     - 101546081 101546363              BC001368     1   282   304
browser |   282  100.0%         11     + 103459679 103459960              BC001368     1   282   304
browser |   282  100.0%         12     -   8095258   8095539              BC001368     1   282   304
browser |   282  100.0%         12     +  10047959  10048241              BC001368     1   282   304
browser |   282  100.0%         12     -  29295778  29296059              BC001368     1   282   304
browser |   282  100.0%         12     +  58218591  58218872              BC001368     1   282   304
browser |   282  100.0%         12     -  69469198  69469479              BC001368     1   282   304
browser |   282  100.0%         12     -  94343499  94343784              BC001368     1   282   304
browser |   282  100.0%         12     -  99928288  99928569              BC001368     1   282   304
browser |   282  100.0%         12     + 122973291 122973572              BC001368     1   282   304
browser |   282  100.0%         13     +  24082547  24082828              BC001368     1   282   304
browser |   282  100.0%         13     +  24696433  24696720              BC001368     1   282   304
browser |   282  100.0%         13     +  82315085  82315366              BC001368     1   282   304
browser |   282  100.0%         13     +  87023639  87023920              BC001368     1   282   304
browser |   282  100.0%         13     +  91005605  91005886              BC001368     1   282   304
browser |   282  100.0%         13     + 101386948 101387229              BC001368     1   282   304
browser |   282  100.0%         13     + 110587400 110587681              BC001368     1   282   304
browser |   282  100.0%         14     +  28792299  28792580              BC001368     1   282   304
browser |   282  100.0%         14     -  33446185  33446466              BC001368     1   282   304
browser |   282  100.0%         14     +  48357628  48357909              BC001368     1   282   304
browser |   282  100.0%         14     +  56564518  56564809              BC001368     1   282   304
browser |   282  100.0%         14     +  58102538  58102819              BC001368     1   282   304
browser |   282  100.0%         14     +  78361911  78362192              BC001368     1   282   304
browser |   282  100.0%         14     -  87448146  87448427              BC001368     1   282   304
browser |   282  100.0%         14     - 101524572 101524857              BC001368     1   282   304
browser |   281  100.0%         15     -  24594204  24594484              BC001368     2   282   304
browser |   282  100.0%         15     +  39227921  39228202              BC001368     1   282   304
browser |   282  100.0%         15     -  55979363  55979644              BC001368     1   282   304
browser |   282  100.0%         15     -  58620678  58620959              BC001368     1   282   304
browser |   282  100.0%         15     -  69473117  69473398              BC001368     1   282   304
browser |   282  100.0%         15     +  85399223  85399504              BC001368     1   282   304
browser |   282  100.0%         15     -  90359082  90359363              BC001368     1   282   304
browser |   282  100.0%         15     -  92890216  92890497              BC001368     1   282   304
browser |   282  100.0%         15     -  98162899  98163180              BC001368     1   282   304
browser |   282   99.3%  15_KI270848v1_alt     -    204180    204463              BC001368     1   282   304
browser |   282   97.9%  15_KI270850v1_alt     +    368744    369025              BC001368     1   282   304
browser |   124   96.8%  15_KI270905v1_alt     +   3955866   3955989              BC001368     1   124   304
browser |   124   96.8%  15_KN538374v1_fix     +   3843414   3843537              BC001368     1   124   304
browser |   282  100.0%         16     +   8016629   8016910              BC001368     1   282   304
browser |   282  100.0%         16     -  16836523  16836804              BC001368     1   282   304
browser |   279  100.0%         16     -  26596754  26597036              BC001368     1   279   304
browser |   282  100.0%         16     -  30799220  30799501              BC001368     1   282   304
browser |   282  100.0%         16     +  57044025  57160298              BC001368     1   282   304
browser |   282  100.0%         16     -  66765881  66766162              BC001368     1   282   304
browser |   282  100.0%         16     -  71130497  71130779              BC001368     1   282   304
browser |   282  100.0%         16     +  72009230  72009511              BC001368     1   282   304
browser |   282  100.0%         16     +  81085883  81086164              BC001368     1   282   304
browser |   282   99.7%  16_KI270853v1_alt     -   2497433   2497714              BC001368     1   282   304
browser |   280   95.0%  16_KV880768v1_fix     +   1323388   1706009              BC001368     1   282   304
browser |   282  100.0%         17     -  19723563  19723844              BC001368     1   282   304
browser |   282  100.0%         17     -  36422367  36422648              BC001368     1   282   304
browser |   282  100.0%         17     +  59032252  59032533              BC001368     1   282   304
browser |   282  100.0%         17     -  67409094  67409375              BC001368     1   282   304
browser |   282  100.0%         17     +  75194609  75194890              BC001368     1   282   304
browser |   282  100.0%         17     +  81610679  81610960              BC001368     1   282   304
browser |   282   99.0%  17_KI270857v1_alt     -    606191    606472              BC001368     1   282   304
browser |   282  100.0%  17_KI270857v1_alt     -    657271    657552              BC001368     1   282   304
browser |   282  100.0%         18     -    837128    837409              BC001368     1   282   304
browser |   282  100.0%         18     -  46758503  46758784              BC001368     1   282   304
browser |   282   99.7%         18     -  48664924  48665205              BC001368     1   282   304
browser |   282  100.0%         18     +  57236476  57236757              BC001368     1   282   304
browser |   282  100.0%         18     -  63754909  63755195              BC001368     1   282   304
browser |   282  100.0%         18     +  70437027  70437308              BC001368     1   282   304
browser |   282  100.0%         18     -  78173077  78173358              BC001368     1   282   304
browser |   282  100.0%         18     +  78237306  78453397              BC001368     1   282   304
browser |   282   96.1%  18_GL383568v1_alt     +     28224     46522              BC001368     1   282   304
browser |   282   99.3%  18_KQ090028v1_fix     -    149971    150252              BC001368     1   282   304
browser |   282  100.0%  18_KZ208922v1_fix     +     13940     14221              BC001368     1   282   304
browser |   268  100.0%         19     +  29402999  29403266              BC001368    15   282   304
browser |   279  100.0%         19     +  56344633  56344911              BC001368     4   282   304
browser |   279  100.0%          2     +  11283290  11283569              BC001368     4   282   304
browser |   282  100.0%          2     -  33556257  33556538              BC001368     1   282   304
browser |   282  100.0%          2     -  39365454  39365735              BC001368     1   282   304
browser |   282  100.0%          2     +  58134338  58134619              BC001368     1   282   304
browser |   282  100.0%          2     -  83957821  83958102              BC001368     1   282   304
browser |   282  100.0%          2     - 115790089 115790370              BC001368     1   282   304
browser |   282  100.0%          2     - 124035934 124036215              BC001368     1   282   304
browser |   282  100.0%          2     + 127752317 127752598              BC001368     1   282   304
browser |   282  100.0%          2     + 132590978 132591259              BC001368     1   282   304
browser |   282  100.0%          2     - 137238563 137238844              BC001368     1   282   304
browser |   282  100.0%          2     - 159519239 159519521              BC001368     1   282   304
browser |   282  100.0%          2     + 180453093 180453374              BC001368     1   282   304
browser |   282  100.0%          2     + 187365970 187366251              BC001368     1   282   304
browser |   282  100.0%          2     + 187374999 187375280              BC001368     1   282   304
browser |   282  100.0%          2     - 189718759 189719040              BC001368     1   282   304
browser |   282  100.0%          2     - 192614092 192614373              BC001368     1   282   304
browser |   282  100.0%          2     + 202786273 202786557              BC001368     1   282   304
browser |   282  100.0%          2     + 210639339 210639620              BC001368     1   282   304
browser |   282  100.0%          2     + 214718755 214719037              BC001368     1   282   304
browser |   282  100.0%          2     + 221860735 221861016              BC001368     1   282   304
browser |   282  100.0%          2     - 230460633 230460914              BC001368     1   282   304
browser |   279  100.0%         20     -   8486508   8486786              BC001368     1   279   304
browser |   282  100.0%         20     -  46912710  46912991              BC001368     1   282   304
browser |   282  100.0%         20     -  50156265  50156546              BC001368     1   282   304
browser |   282  100.0%         20     +  59852930  59853211              BC001368     1   282   304
browser |   282  100.0%         20     +  63827334  63827616              BC001368     1   282   304
browser |   282  100.0%         21     +  18374200  18374481              BC001368     1   282   304
browser |   282  100.0%         21     +  33819709  33819990              BC001368     1   282   304
browser |   282  100.0%         21     -  37720717  37720998              BC001368     1   282   304
browser |   282  100.0%         22     +  22828378  22828659              BC001368     1   282   304
browser |   282  100.0%         22     -  40775473  40775754              BC001368     1   282   304
browser |   282  100.0%          3     -   8477936   8478217              BC001368     1   282   304
browser |   282  100.0%          3     -  15749120  15749403              BC001368     1   282   304
browser |   282  100.0%          3     +  24330032  24330315              BC001368     1   282   304
browser |   282  100.0%          3     -  34853869  34854150              BC001368     1   282   304
browser |   282  100.0%          3     +  39286377  39286659              BC001368     1   282   304
browser |   282  100.0%          3     +  47930172  47930453              BC001368     1   282   304
browser |   282  100.0%          3     +  49886162  49886443              BC001368     1   282   304
browser |   282  100.0%          3     +  57761774  57762055              BC001368     1   282   304
browser |   282  100.0%          3     +  60534154  60534441              BC001368     1   282   304
browser |   282  100.0%          3     -  67068848  67069129              BC001368     1   282   304
browser |   282  100.0%          3     -  79496393  79496678              BC001368     1   282   304
browser |   282  100.0%          3     -  85897279  85897560              BC001368     1   282   304
browser |   282  100.0%          3     +  89984736  89985017              BC001368     1   282   304
browser |   282  100.0%          3     - 102564979 102565260              BC001368     1   282   304
browser |   282  100.0%          3     + 105521028 105521309              BC001368     1   282   304
browser |   282  100.0%          3     - 108143323 108143604              BC001368     1   282   304
browser |   282  100.0%          3     - 117309960 117310241              BC001368     1   282   304
browser |   282  100.0%          3     + 125181328 125181609              BC001368     1   282   304
browser |   282  100.0%          3     - 129465652 129465933              BC001368     1   282   304
browser |   282  100.0%          3     - 136580543 136580824              BC001368     1   282   304
browser |   282  100.0%          3     + 153831843 153832128              BC001368     1   282   304
browser |   282  100.0%          3     + 181491831 181492112              BC001368     1   282   304
browser |   282  100.0%          3     - 181682344 181682626              BC001368     1   282   304
browser |   282  100.0%          3     + 186311843 186312124              BC001368     1   282   304
browser |   282  100.0%          3     + 188587070 188587351              BC001368     1   282   304
browser |   282  100.0%          3     + 192138317 192138598              BC001368     1   282   304
browser |   282  100.0%          4     -    711467    711748              BC001368     1   282   304
browser |   282  100.0%          4     +   5042833   5043114              BC001368     1   282   304
browser |   282  100.0%          4     +   5692594   5692875              BC001368     1   282   304
browser |   282  100.0%          4     -  17035929  17036210              BC001368     1   282   304
browser |   282  100.0%          4     -  25918914  25919195              BC001368     1   282   304
browser |   282  100.0%          4     -  32742732  32743013              BC001368     1   282   304
browser |   282  100.0%          4     -  36841178  36841459              BC001368     1   282   304
browser |   282  100.0%          4     -  54487045  54487326              BC001368     1   282   304
browser |   282  100.0%          4     -  55132432  55132713              BC001368     1   282   304
browser |   282  100.0%          4     -  57194676  57194957              BC001368     1   282   304
browser |   282  100.0%          4     -  65531047  65531328              BC001368     1   282   304
browser |   282  100.0%          4     -  82446716  82446997              BC001368     1   282   304
browser |   282  100.0%          4     -  87854511  87854792              BC001368     1   282   304
browser |   282  100.0%          4     -  89025274  89025555              BC001368     1   282   304
browser |   282  100.0%          4     -  91424026  91424308              BC001368     1   282   304
browser |   282  100.0%          4     +  95042902  95043183              BC001368     1   282   304
browser |   282  100.0%          4     -  96129264  96129545              BC001368     1   282   304
browser |   282  100.0%          4     -  98354072  98354353              BC001368     1   282   304
browser |   282  100.0%          4     + 104863464 104863745              BC001368     1   282   304
browser |   280  100.0%          4     + 124691221 124691500              BC001368     3   282   304
browser |   282  100.0%          4     + 165039525 165039806              BC001368     1   282   304
browser |   282  100.0%          4     + 177593112 177593393              BC001368     1   282   304
browser |   281  100.0%          5     -   7221846   7222126              BC001368     2   282   304
browser |   282  100.0%          5     +  34327369  34327650              BC001368     1   282   304
browser |   282  100.0%          5     +  39070192  39070477              BC001368     1   282   304
browser |   282  100.0%          5     +  43605243  43605524              BC001368     1   282   304
browser |   279  100.0%          5     +  43614867  43615145              BC001368     4   282   304
browser |   282  100.0%          5     +  43708420  43708701              BC001368     1   282   304
browser |   282  100.0%          5     +  53409664  53409945              BC001368     1   282   304
browser |   282  100.0%          5     +  55298757  55299038              BC001368     1   282   304
browser |   282  100.0%          5     +  55559820  55560101              BC001368     1   282   304
browser |   282  100.0%          5     +  61997822  61998103              BC001368     1   282   304
browser |   282  100.0%          5     -  63777087  63777371              BC001368     1   282   304
browser |   282  100.0%          5     -  77752568  77752849              BC001368     1   282   304
browser |   282  100.0%          5     +  81455346  81455627              BC001368     1   282   304
browser |   282  100.0%          5     -  89477533  89477814              BC001368     1   282   304
browser |   282  100.0%          5     +  96452677  96452958              BC001368     1   282   304
browser |   282  100.0%          5     + 100272469 100272750              BC001368     1   282   304
browser |   282  100.0%          5     - 116558472 116558753              BC001368     1   282   304
browser |   282  100.0%          5     + 125418933 125419214              BC001368     1   282   304
browser |   282  100.0%          5     + 129714146 129714427              BC001368     1   282   304
browser |   282  100.0%          5     - 147477592 147477873              BC001368     1   282   304
browser |   282  100.0%          5     + 163654635 163654916              BC001368     1   282   304
browser |   280  100.0%          5     + 179329855 179330134              BC001368     3   282   304
browser |   274   95.3%  5_GL339449v2_alt     -     82285    397479              BC001368     1   282   304
browser |   282  100.0%  5_GL339449v2_alt     -    517425    517706              BC001368     1   282   304
browser |   282  100.0%  5_KI270796v1_alt     +    139468    139749              BC001368     1   282   304
browser |   282  100.0%  5_KI270897v1_alt     +    243016    243297              BC001368     1   282   304
browser |   280  100.0%  5_KV575244v1_fix     +     94562     94841              BC001368     3   282   304
browser |   107   96.3%  5_KV575244v1_fix     -    509135    510776              BC001368     2   108   304
browser |   279  100.0%          6     -  23052999  23053277              BC001368     1   279   304
browser |   282  100.0%          6     -  38358781  38359062              BC001368     1   282   304
browser |   282  100.0%          6     +  41918674  41918955              BC001368     1   282   304
browser |   282  100.0%          6     -  51941265  51941546              BC001368     1   282   304
browser |   282  100.0%          6     +  54915533  54915814              BC001368     1   282   304
browser |   282  100.0%          6     +  62504677  62504958              BC001368     1   282   304
browser |   282  100.0%          6     +  76674386  76674667              BC001368     1   282   304
browser |   282  100.0%          6     +  86749875  86750156              BC001368     1   282   304
browser |   282  100.0%          6     -  92015088  92015369              BC001368     1   282   304
browser |   282  100.0%          6     +  94949165  94949446              BC001368     1   282   304
browser |   282  100.0%          6     +  95602747  95603028              BC001368     1   282   304
browser |   282  100.0%          6     +  98243346  98243627              BC001368     1   282   304
browser |   282  100.0%          6     + 104464203 104464484              BC001368     1   282   304
browser |   279  100.0%          6     - 106535794 106536072              BC001368     4   282   304
browser |   282  100.0%          6     + 113743242 113743523              BC001368     1   282   304
browser |   282  100.0%          6     + 119136005 119136286              BC001368     1   282   304
browser |   282  100.0%          6     + 122115621 122115902              BC001368     1   282   304
browser |   282  100.0%          6     + 133858308 133858589              BC001368     1   282   304
browser |   281  100.0%          6     - 134871753 134872033              BC001368     2   282   304
browser |   282  100.0%          6     - 151685143 151685424              BC001368     1   282   304
browser |   282  100.0%          6     - 162773524 162816643              BC001368     1   282   304
browser |   282  100.0%          6     + 164366396 164366677              BC001368     1   282   304
browser |   282  100.0%          6     - 168252774 168253055              BC001368     1   282   304
browser |   279  100.0%          7     -   9655810   9656088              BC001368     4   282   304
browser |   282  100.0%          7     +  13624823  13625104              BC001368     1   282   304
browser |   282  100.0%          7     -  14843344  14843625              BC001368     1   282   304
browser |   282  100.0%          7     +  30590585  30590866              BC001368     1   282   304
browser |   282  100.0%          7     -  37958931  37959212              BC001368     1   282   304
browser |   282  100.0%          7     +  56526180  56526461              BC001368     1   282   304
browser |   282  100.0%          7     -  57726754  57727035              BC001368     1   282   304
browser |   280  100.0%          7     +  64954831  64955110              BC001368     3   282   304
browser |   282  100.0%          7     +  71102100  71102384              BC001368     1   282   304
browser |   282  100.0%          7     + 104546963 104547244              BC001368     1   282   304
browser |   282  100.0%          7     - 110441771 110442052              BC001368     1   282   304
browser |   282  100.0%          7     + 119981370 119981651              BC001368     1   282   304
browser |   282  100.0%          7     - 131322580 131322861              BC001368     1   282   304
browser |   282  100.0%          7     - 139424914 139425199              BC001368     1   282   304
browser |   279  100.0%          7     + 149539590 149539868              BC001368     4   282   304
browser |   282  100.0%          8     +   2231274   2231555              BC001368     1   282   304
browser |   282  100.0%          8     -   5048835   5049116              BC001368     1   282   304
browser |   282  100.0%          8     -  12671232  12671513              BC001368     1   282   304
browser |   282  100.0%          8     +  27668267  27668548              BC001368     1   282   304
browser |   282  100.0%          8     +  38333594  38333875              BC001368     1   282   304
browser |   282  100.0%          8     +  42730775  42731056              BC001368     1   282   304
browser |   282  100.0%          8     +  68381459  68381740              BC001368     1   282   304
browser |   282  100.0%          8     +  75293411  75293692              BC001368     1   282   304
browser |   282  100.0%          8     +  78427784  78428066              BC001368     1   282   304
browser |   282  100.0%          8     -  91699997  91700278              BC001368     1   282   304
browser |   282  100.0%          8     -  97583214  97583495              BC001368     1   282   304
browser |   282  100.0%          8     + 106057635 106057916              BC001368     1   282   304
browser |   282  100.0%          8     - 109498111 109498392              BC001368     1   282   304
browser |   282  100.0%          8     + 113019890 113020171              BC001368     1   282   304
browser |   282  100.0%          8     + 123753006 123753288              BC001368     1   282   304
browser |   282  100.0%          8     + 129381958 129382239              BC001368     1   282   304
browser |   282  100.0%          8     + 130133383 130133664              BC001368     1   282   304
browser |   282  100.0%          8     + 136704595 136704876              BC001368     1   282   304
browser |   282   99.0%  8_KZ208915v1_fix     -   3398038   3398319              BC001368     1   282   304
browser |   282   99.3%  8_KZ208915v1_fix     -   3682132   3682413              BC001368     1   282   304
browser |   282  100.0%          9     +    200140    200421              BC001368     1   282   304
browser |   282  100.0%          9     -    608047    612009              BC001368     1   282   304
browser |   282  100.0%          9     +   4956816   4957097              BC001368     1   282   304
browser |   282  100.0%          9     +   7440353   7440634              BC001368     1   282   304
browser |   282  100.0%          9     +   9653069   9653350              BC001368     1   282   304
browser |   282  100.0%          9     +  15394907  15395188              BC001368     1   282   304
browser |   282  100.0%          9     -  23225245  23225526              BC001368     1   282   304
browser |   282  100.0%          9     -  36309314  36309595              BC001368     1   282   304
browser |   282  100.0%          9     -  87439146  87439427              BC001368     1   282   304
browser |   282  100.0%          9     + 108616226 108616507              BC001368     1   282   304
browser |   282  100.0%          9     - 113487121 113487402              BC001368     1   282   304
browser |   282  100.0%          9     + 118720738 118721019              BC001368     1   282   304
browser |   282  100.0%          9     - 130064207 130064491              BC001368     1   282   304
browser |   282   99.7%  9_GL383539v1_alt     +     26202     26483              BC001368     1   282   304
browser |   282  100.0%          X     +  23076351  23076632              BC001368     1   282   304
browser |   282  100.0%          X     -  57131095  57131376              BC001368     1   282   304
browser |   282  100.0%          X     -  80872161  80872442              BC001368     1   282   304
browser |   282  100.0%          X     +  82160079  82160360              BC001368     1   282   304
browser |   282  100.0%          X     +  85254331  85254615              BC001368     1   282   304
browser |   282  100.0%          X     -  99178178  99178459              BC001368     1   282   304
browser |   282  100.0%          X     + 101781800 101782081              BC001368     1   282   304
browser |   282  100.0%          X     + 103911660 103911941              BC001368     1   282   304
browser |   282  100.0%          X     + 136949099 136949380              BC001368     1   282   304
browser |   282  100.0%          X     + 147963581 147963871              BC001368     1   282   304
browser |   282  100.0%          Y     +  13769915  13770196              BC001368     1   282   304
browser |   282  100.0%          Y     +  23194933  23195214              BC001368     1   282   304
browser |   282  100.0%          Y     +  24809318  24809599              BC001368     1   282   304
browser |   282  100.0%          Y     -  24837713  24837994              BC001368     1   282   304

View details of parts of alignment within browser window
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Go to Human mRNAs track controls

Data last updated: 2020-02-04


p12 Note: Includes annotations on GRCh38.p12 patch sequences

Description

The mRNA track shows alignments between human mRNAs in GenBank and the genome.

Display Conventions and Configuration

This track follows the display conventions for PSL alignment tracks. In dense display mode, the items that are more darkly shaded indicate matches of better quality.

The description page for this track has a filter that can be used to change the display mode, alter the color, and include/exclude a subset of items within the track. This may be helpful when many items are shown in the track display, especially when only some are relevant to the current task.

To use the filter:

  1. Type a term in one or more of the text boxes to filter the mRNA display. For example, to apply the filter to all mRNAs expressed in a specific organ, type the name of the organ in the tissue box. To view the list of valid terms for each text box, consult the table in the Table Browser that corresponds to the factor on which you wish to filter. For example, the "tissue" table contains all the types of tissues that can be entered into the tissue text box. Multiple terms may be entered at once, separated by a space. Wildcards may also be used in the filter.
  2. If filtering on more than one value, choose the desired combination logic. If "and" is selected, only mRNAs that match all filter criteria will be highlighted. If "or" is selected, mRNAs that match any one of the filter criteria will be highlighted.
  3. Choose the color or display characteristic that should be used to highlight or include/exclude the filtered items. If "exclude" is chosen, the browser will not display mRNAs that match the filter criteria. If "include" is selected, the browser will display only those mRNAs that match the filter criteria.

This track may also be configured to display codon coloring, a feature that allows the user to quickly compare mRNAs against the genomic sequence. For more information about this option, go to the Codon and Base Coloring for Alignment Tracks page. Several types of alignment gap may also be colored; for more information, go to the Alignment Insertion/Deletion Display Options page.

Methods

GenBank human mRNAs were aligned against the genome using the blat program. When a single mRNA aligned in multiple places, the alignment having the highest base identity was found. Only alignments having a base identity level within 0.5% of the best and at least 96% base identity with the genomic sequence were kept.

Credits

The mRNA track was produced at UCSC from mRNA sequence data submitted to the international public sequence databases by scientists worldwide.

References

Benson DA, Cavanaugh M, Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. GenBank. Nucleic Acids Res. 2013 Jan;41(Database issue):D36-42. PMID: 23193287; PMC: PMC3531190

Benson DA, Karsch-Mizrachi I, Lipman DJ, Ostell J, Wheeler DL. GenBank: update. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D23-6. PMID: 14681350; PMC: PMC308779

Kent WJ. BLAT - the BLAST-like alignment tool. Genome Res. 2002 Apr;12(4):656-64. PMID: 11932250; PMC: PMC187518