AB350189
 

Information on mRNA AB350189

Description: Mus musculus non-coding RNA, oocyte_piRNA1005, complete sequence.
Gene: n/a
Product: n/a
Author: Watanabe,T., Totoki,Y., Toyoda,A., Kaneda,M., Kuramochi-Miyagawa,S., Obata,Y., Chiba,H., Kohara,Y., Kono,T., Nakano,T., Surani,M.A., Sakaki,Y. and Sasaki,H.
Organism: Mus musculus
Tissue: ovary
Development stage: p8
Cell line: n/a
Sex: n/a
Library: n/a
Clone: n/a
CDS: n/a
Date: 2008-04-24
Version: 1
mRNA sequence: AB350189
Position: chr12:56798235-56798260

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 |    26  100.0%         12     -  56798235  56798260              AB350189     1    26    26
browser |    26  100.0%          1     -   4629526   4629551              AB350189     1    26    26
browser |    26  100.0%          1     -   5636696   5636721              AB350189     1    26    26
browser |    26  100.0%          1     +   5817660   5817685              AB350189     1    26    26
browser |    26  100.0%          1     +   6239064   6239089              AB350189     1    26    26
browser |    26  100.0%          1     -   6506991   6507016              AB350189     1    26    26
browser |    26  100.0%          1     +   7679381   7679406              AB350189     1    26    26
browser |    26  100.0%          1     +   7890369   7890394              AB350189     1    26    26
browser |    26  100.0%          1     +   8064626   8064651              AB350189     1    26    26
browser |    26  100.0%          1     +   8858119   8858144              AB350189     1    26    26
browser |    26  100.0%          1     -  10806481  10806506              AB350189     1    26    26
browser |    26  100.0%          1     -  11102368  11102393              AB350189     1    26    26
browser |    26  100.0%          1     -  11439439  11439464              AB350189     1    26    26
browser |    26  100.0%          1     -  11961073  11961098              AB350189     1    26    26
browser |    26  100.0%          1     -  12020284  12020309              AB350189     1    26    26
browser |    26  100.0%          1     +  13621515  13621540              AB350189     1    26    26
browser |    26  100.0%          1     +  14031920  14031945              AB350189     1    26    26
browser |    26  100.0%          1     +  16809194  16809219              AB350189     1    26    26
browser |    26  100.0%          1     +  18027722  18027747              AB350189     1    26    26
browser |    26  100.0%          1     -  18324400  18324425              AB350189     1    26    26
browser |    26  100.0%          1     +  18587791  18587816              AB350189     1    26    26
browser |    26  100.0%          1     +  21652816  21652841              AB350189     1    26    26
browser |    26  100.0%          1     -  22071837  22071862              AB350189     1    26    26
browser |    26  100.0%          1     -  26392712  26392737              AB350189     1    26    26
browser |    26  100.0%          1     +  26453780  26453805              AB350189     1    26    26
browser |    26  100.0%          1     -  26514567  26514592              AB350189     1    26    26
browser |    26  100.0%          1     +  27176519  27176544              AB350189     1    26    26
browser |    26  100.0%          1     -  28497062  28497087              AB350189     1    26    26
browser |    26  100.0%          1     +  28929158  28929183              AB350189     1    26    26
browser |    26  100.0%          1     +  29694646  29694671              AB350189     1    26    26
browser |    26  100.0%          1     -  30728474  30728499              AB350189     1    26    26
browser |    26  100.0%          1     -  37321845  37321870              AB350189     1    26    26
browser |    26  100.0%          1     -  47996628  47996653              AB350189     1    26    26
browser |    26  100.0%          1     -  81548226  81548251              AB350189     1    26    26
browser |    26  100.0%          1     +  81961255  81961280              AB350189     1    26    26
browser |    26  100.0%          1     -  83209896  83209921              AB350189     1    26    26
browser |    26  100.0%          1     -  84977549  84977574              AB350189     1    26    26
browser |    26  100.0%          1     -  86247080  86247105              AB350189     1    26    26
browser |    26  100.0%          1     -  87067816  87067841              AB350189     1    26    26
browser |    26  100.0%          1     +  87388569  87388594              AB350189     1    26    26
browser |    26  100.0%          1     +  89127542  89127567              AB350189     1    26    26
browser |    26  100.0%          1     -  91405314  91405339              AB350189     1    26    26
browser |    26  100.0%          1     -  93038548  93038573              AB350189     1    26    26
browser |    26  100.0%          1     +  95623588  95623613              AB350189     1    26    26
browser |    26  100.0%          1     +  95731701  95731726              AB350189     1    26    26
browser |    26  100.0%          1     -  95965877  95965902              AB350189     1    26    26
browser |    26  100.0%          1     +  97101139  97101164              AB350189     1    26    26
browser |    26  100.0%          1     -  98530526  98530551              AB350189     1    26    26
browser |    26  100.0%          1     - 100458467 100458492              AB350189     1    26    26
browser |    26  100.0%          1     - 101912285 101912310              AB350189     1    26    26
browser |    26  100.0%          1     + 102078465 102078490              AB350189     1    26    26
browser |    26  100.0%          1     + 102960122 102960147              AB350189     1    26    26
browser |    26  100.0%          1     - 103139260 103139285              AB350189     1    26    26
browser |    26  100.0%          1     + 103517266 103517291              AB350189     1    26    26
browser |    26  100.0%          1     - 104221723 104221748              AB350189     1    26    26
browser |    26  100.0%          1     + 104292956 104292981              AB350189     1    26    26
browser |    26  100.0%          1     + 108065804 108065829              AB350189     1    26    26
browser |    26  100.0%          1     - 108343014 108343039              AB350189     1    26    26
browser |    26  100.0%          1     - 108875737 108875762              AB350189     1    26    26
browser |    26  100.0%          1     + 108885436 108885461              AB350189     1    26    26
browser |    26  100.0%          1     + 109541867 109541892              AB350189     1    26    26
browser |    26  100.0%          1     - 110869324 110869349              AB350189     1    26    26
browser |    26  100.0%          1     + 111631769 111631794              AB350189     1    26    26
browser |    26  100.0%          1     + 112857836 112857861              AB350189     1    26    26
browser |    26  100.0%          1     + 112944533 112944558              AB350189     1    26    26
browser |    26  100.0%          1     - 159803676 159803701              AB350189     1    26    26
browser |    26  100.0%          1     + 161360831 161360856              AB350189     1    26    26
browser |    26  100.0%          1     + 162668810 162668835              AB350189     1    26    26
browser |    26  100.0%          1     - 163299451 163299476              AB350189     1    26    26
browser |    26  100.0%          1     + 166180469 166180494              AB350189     1    26    26
browser |    26  100.0%          1     + 166409303 166409328              AB350189     1    26    26
browser |    26  100.0%          1     - 166596654 166596679              AB350189     1    26    26
browser |    26  100.0%          1     + 171658449 171658474              AB350189     1    26    26
browser |    26  100.0%          1     + 172094017 172094042              AB350189     1    26    26
browser |    26  100.0%          1     - 174875114 174875139              AB350189     1    26    26
browser |    26  100.0%          1     + 177886309 177886334              AB350189     1    26    26
browser |    26  100.0%          1     - 177956161 177956186              AB350189     1    26    26
browser |    26  100.0%          1     + 178002371 178002396              AB350189     1    26    26
browser |    26  100.0%          1     - 181097432 181097457              AB350189     1    26    26
browser |    26  100.0%          1     + 183297460 183297485              AB350189     1    26    26
browser |    26  100.0%          1     + 185036927 185036952              AB350189     1    26    26
browser |    26  100.0%          1     + 191234962 191234987              AB350189     1    26    26
browser |    26  100.0%          1     + 195003340 195003365              AB350189     1    26    26
browser |    26  100.0%         10     -   3270319   3270344              AB350189     1    26    26
browser |    26  100.0%         10     -   6520742   6520767              AB350189     1    26    26
browser |    26  100.0%         10     +   7192208   7192233              AB350189     1    26    26
browser |    26  100.0%         10     +   7362419   7362444              AB350189     1    26    26
browser |    26  100.0%         10     +   8475714   8475739              AB350189     1    26    26
browser |    26  100.0%         10     +   8511923   8511948              AB350189     1    26    26
browser |    26  100.0%         10     +   9723531   9723556              AB350189     1    26    26
browser |    26  100.0%         10     +  11570708  11570733              AB350189     1    26    26
browser |    26  100.0%         10     -  14488387  14488412              AB350189     1    26    26
browser |    26  100.0%         10     -  15058526  15058551              AB350189     1    26    26
browser |    26  100.0%         10     +  15811972  15811997              AB350189     1    26    26
browser |    26  100.0%         10     +  18115740  18115765              AB350189     1    26    26
browser |    26  100.0%         10     -  19421030  19421055              AB350189     1    26    26
browser |    26  100.0%         10     +  19673758  19673783              AB350189     1    26    26
browser |    26  100.0%         10     +  21087988  21088013              AB350189     1    26    26
browser |    26  100.0%         10     -  21524558  21524583              AB350189     1    26    26
browser |    26  100.0%         10     -  22405480  22405505              AB350189     1    26    26
browser |    26  100.0%         10     -  22565501  22565526              AB350189     1    26    26
browser |    26  100.0%         10     -  23753589  23753614              AB350189     1    26    26
browser |    26  100.0%         10     +  24563100  24563125              AB350189     1    26    26
browser |    26  100.0%         10     -  24981691  24981716              AB350189     1    26    26
browser |    26  100.0%         10     +  25845016  25845041              AB350189     1    26    26
browser |    26  100.0%         10     -  28889188  28889213              AB350189     1    26    26
browser |    26  100.0%         10     +  30358124  30358149              AB350189     1    26    26
browser |    26  100.0%         10     +  30965420  30965445              AB350189     1    26    26
browser |    26  100.0%         10     +  31626862  31626887              AB350189     1    26    26
browser |    26  100.0%         10     +  32813559  32813584              AB350189     1    26    26
browser |    26  100.0%         10     -  34624171  34624196              AB350189     1    26    26
browser |    26  100.0%         10     -  35600524  35600549              AB350189     1    26    26
browser |    26  100.0%         10     -  37729144  37729169              AB350189     1    26    26
browser |    26  100.0%         10     -  39639688  39639713              AB350189     1    26    26
browser |    26  100.0%         10     -  45435467  45435492              AB350189     1    26    26
browser |    26  100.0%         10     +  80812676  80812701              AB350189     1    26    26
browser |    26  100.0%         10     -  81512755  81512780              AB350189     1    26    26
browser |    26  100.0%         10     -  81671883  81671908              AB350189     1    26    26
browser |    26  100.0%         10     -  82410034  82410059              AB350189     1    26    26
browser |    26  100.0%         10     +  82775971  82775996              AB350189     1    26    26
browser |    26  100.0%         10     -  83254105  83254130              AB350189     1    26    26
browser |    26  100.0%         10     -  83308116  83308141              AB350189     1    26    26
browser |    26  100.0%         10     -  83513125  83513150              AB350189     1    26    26
browser |    26  100.0%         10     -  85608272  85608297              AB350189     1    26    26
browser |    26  100.0%         10     +  86979179  86979204              AB350189     1    26    26
browser |    26  100.0%         10     +  88487549  88487574              AB350189     1    26    26
browser |    26  100.0%         10     +  88800645  88800670              AB350189     1    26    26
browser |    26  100.0%         10     -  91651948  91651973              AB350189     1    26    26
browser |    26  100.0%         10     +  92355764  92355789              AB350189     1    26    26
browser |    26  100.0%         10     -  92589136  92589161              AB350189     1    26    26
browser |    26  100.0%         10     -  94204390  94204415              AB350189     1    26    26
browser |    26  100.0%         10     -  95997534  95997559              AB350189     1    26    26
browser |    26  100.0%         10     -  96034829  96034854              AB350189     1    26    26
browser |    26  100.0%         10     -  97164712  97164737              AB350189     1    26    26
browser |    26  100.0%         10     -  98938459  98938484              AB350189     1    26    26
browser |    26  100.0%         10     +  99175643  99175668              AB350189     1    26    26
browser |    26  100.0%         10     -  99386470  99386495              AB350189     1    26    26
browser |    26  100.0%         10     + 100415673 100415698              AB350189     1    26    26
browser |    26  100.0%         10     + 103910607 103910632              AB350189     1    26    26
browser |    26  100.0%         10     - 104412587 104412612              AB350189     1    26    26
browser |    26  100.0%         10     + 104672168 104672193              AB350189     1    26    26
browser |    26  100.0%         10     + 107836106 107836131              AB350189     1    26    26
browser |    26  100.0%         10     + 110532859 110532884              AB350189     1    26    26
browser |    26  100.0%         10     + 110836995 110837020              AB350189     1    26    26
browser |    26  100.0%         10     + 122342395 122342420              AB350189     1    26    26
browser |    26  100.0%         10     + 123695989 123696014              AB350189     1    26    26
browser |    26  100.0%         10     + 129050364 129050389              AB350189     1    26    26
browser |    26  100.0%         11     +   6482380   6482405              AB350189     1    26    26
browser |    26  100.0%         11     +   6748355   6748380              AB350189     1    26    26
browser |    26  100.0%         11     -   7532146   7532171              AB350189     1    26    26
browser |    26  100.0%         11     -   7986610   7986635              AB350189     1    26    26
browser |    26  100.0%         11     -   9664333   9664358              AB350189     1    26    26
browser |    26  100.0%         11     +  12512608  12512633              AB350189     1    26    26
browser |    26  100.0%         11     +  12746333  12746358              AB350189     1    26    26
browser |    26  100.0%         11     +  13823920  13823945              AB350189     1    26    26
browser |    26  100.0%         11     -  14849076  14849101              AB350189     1    26    26
browser |    26  100.0%         11     +  15178444  15178469              AB350189     1    26    26
browser |    26  100.0%         11     -  15237226  15237251              AB350189     1    26    26
browser |    26  100.0%         11     +  15811068  15811093              AB350189     1    26    26
browser |    26  100.0%         11     +  15834404  15834429              AB350189     1    26    26
browser |    26  100.0%         11     +  16179263  16179288              AB350189     1    26    26
browser |    26  100.0%         11     -  18762857  18762882              AB350189     1    26    26
browser |    26  100.0%         11     -  19742707  19742732              AB350189     1    26    26
browser |    26  100.0%         11     +  20467139  20467164              AB350189     1    26    26
browser |    26  100.0%         11     -  22289683  22289708              AB350189     1    26    26
browser |    26  100.0%         11     +  22528532  22528557              AB350189     1    26    26
browser |    26  100.0%         11     -  23174939  23174964              AB350189     1    26    26
browser |    26  100.0%         11     -  23196555  23196580              AB350189     1    26    26
browser |    26  100.0%         11     +  26506283  26506308              AB350189     1    26    26
browser |    26  100.0%         11     +  27084475  27084500              AB350189     1    26    26
browser |    26  100.0%         11     -  27366722  27366747              AB350189     1    26    26
browser |    26  100.0%         11     +  28048011  28048036              AB350189     1    26    26
browser |    26  100.0%         11     +  29075282  29075307              AB350189     1    26    26
browser |    26  100.0%         11     -  29115666  29115691              AB350189     1    26    26
browser |    26  100.0%         11     +  29231246  29231271              AB350189     1    26    26
browser |    26  100.0%         11     -  31403919  31403944              AB350189     1    26    26
browser |    26  100.0%         11     -  39960926  39960951              AB350189     1    26    26
browser |    26  100.0%         11     -  54473756  54473781              AB350189     1    26    26
browser |    26  100.0%         11     -  55138104  55138129              AB350189     1    26    26
browser |    26  100.0%         11     +  81437127  81437152              AB350189     1    26    26
browser |    26  100.0%         11     -  82228432  82228457              AB350189     1    26    26
browser |    26  100.0%         11     -  85332109  85332134              AB350189     1    26    26
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browser |    26  100.0%         11     -  88808298  88808323              AB350189     1    26    26
browser |    26  100.0%         11     +  90399443  90399468              AB350189     1    26    26
browser |    26  100.0%         11     -  90724850  90724875              AB350189     1    26    26
browser |    26  100.0%         11     +  90793267  90793292              AB350189     1    26    26
browser |    26  100.0%         11     -  90857374  90857399              AB350189     1    26    26
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browser |    26  100.0%         11     +  98504817  98504842              AB350189     1    26    26
browser |    26  100.0%         11     -  99607320  99607345              AB350189     1    26    26
browser |    26  100.0%         11     - 104752179 104752204              AB350189     1    26    26
browser |    26  100.0%         11     - 105923565 105923590              AB350189     1    26    26
browser |    26  100.0%         11     - 106187686 106187711              AB350189     1    26    26
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browser |    26  100.0%         11     + 111074032 111074057              AB350189     1    26    26
browser |    26  100.0%         11     - 111112879 111112904              AB350189     1    26    26
browser |    26  100.0%         11     + 116281063 116281088              AB350189     1    26    26
browser |    26  100.0%         11     + 116651101 116651126              AB350189     1    26    26
browser |    26  100.0%         11     + 116677149 116677174              AB350189     1    26    26
browser |    26  100.0%         11     + 120212614 120212639              AB350189     1    26    26
browser |    26  100.0%         12     +   3053036   3053061              AB350189     1    26    26
browser |    26  100.0%         12     -   3087391   3087416              AB350189     1    26    26
browser |    26  100.0%         12     +   3109260   3109285              AB350189     1    26    26
browser |    26  100.0%         12     +   4838778   4838803              AB350189     1    26    26
browser |    26  100.0%         12     +   6567202   6567227              AB350189     1    26    26
browser |    26  100.0%         12     +   8454053   8454078              AB350189     1    26    26
browser |    26  100.0%         12     -  11159998  11160023              AB350189     1    26    26
browser |    26  100.0%         12     +  14491596  14491621              AB350189     1    26    26
browser |    26  100.0%         12     -  14650531  14650556              AB350189     1    26    26
browser |    26  100.0%         12     +  17294412  17294437              AB350189     1    26    26
browser |    26  100.0%         12     +  17979549  17979574              AB350189     1    26    26
browser |    26  100.0%         12     +  18010533  18010558              AB350189     1    26    26
browser |    26  100.0%         12     +  18180968  18180993              AB350189     1    26    26
browser |    26  100.0%         12     +  19759215  19759240              AB350189     1    26    26
browser |    26  100.0%         12     -  19851189  19851214              AB350189     1    26    26
browser |    26  100.0%         12     -  20694374  20694399              AB350189     1    26    26
browser |    26  100.0%         12     +  21655167  21655192              AB350189     1    26    26
browser |    26  100.0%         12     +  22092698  22092723              AB350189     1    26    26
browser |    26  100.0%         12     +  24396608  24396633              AB350189     1    26    26
browser |    26  100.0%         12     +  24446110  24446135              AB350189     1    26    26
browser |    26  100.0%         12     +  24742805  24742830              AB350189     1    26    26
browser |    26  100.0%         12     -  26158235  26158260              AB350189     1    26    26
browser |    26  100.0%         12     -  27283902  27283927              AB350189     1    26    26
browser |    26  100.0%         12     -  31414489  31414514              AB350189     1    26    26
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browser |    26  100.0%          X     -  96532024  96532049              AB350189     1    26    26
browser |    26  100.0%          X     +  97150346  97150371              AB350189     1    26    26
browser |    26  100.0%          X     - 102094238 102094263              AB350189     1    26    26
browser |    26  100.0%          X     - 105737846 105737871              AB350189     1    26    26
browser |    26  100.0%          X     - 109550624 109550649              AB350189     1    26    26
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browser |    26  100.0%          X     + 112820829 112820854              AB350189     1    26    26
browser |    26  100.0%          X     - 113210501 113210526              AB350189     1    26    26
browser |    26  100.0%          X     + 113322243 113322268              AB350189     1    26    26
browser |    26  100.0%          X     - 113803490 113803515              AB350189     1    26    26
browser |    26  100.0%          X     + 114460381 114460406              AB350189     1    26    26
browser |    26  100.0%          X     + 115562153 115562178              AB350189     1    26    26
browser |    26  100.0%          X     - 116043177 116043202              AB350189     1    26    26
browser |    26  100.0%          X     - 117619190 117619215              AB350189     1    26    26
browser |    26  100.0%          X     + 118172256 118172281              AB350189     1    26    26
browser |    26  100.0%          X     + 119887226 119887251              AB350189     1    26    26
browser |    26  100.0%          X     - 157228425 157228450              AB350189     1    26    26
browser |    26  100.0%          X     + 157460691 157460716              AB350189     1    26    26
browser |    26  100.0%          X     + 157903848 157903873              AB350189     1    26    26
browser |    26  100.0%          X     + 157933696 157933721              AB350189     1    26    26
browser |    26  100.0%          X     + 159069315 159069340              AB350189     1    26    26
browser |    26  100.0%          X     + 160962845 160962870              AB350189     1    26    26
browser |    26  100.0%          X     + 161104032 161104057              AB350189     1    26    26
browser |    26  100.0%          X     + 164633687 164633712              AB350189     1    26    26
browser |    26  100.0%          X     + 166960531 166960556              AB350189     1    26    26
browser |    26  100.0%  X_GL456233v2_random     +    495252    495277              AB350189     1    26    26
browser |    26  100.0%          Y     -    693497    693522              AB350189     1    26    26
browser |    26  100.0%          Y     -    989482    989507              AB350189     1    26    26
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browser |    26  100.0%          Y     -  13633629  13633654              AB350189     1    26    26
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browser |    26  100.0%          Y     +  17253317  17253342              AB350189     1    26    26
browser |    26  100.0%          Y     -  18346445  18346470              AB350189     1    26    26
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browser |    26  100.0%          Y     -  21877450  21877475              AB350189     1    26    26
browser |    26  100.0%          Y     -  23484942  23484967              AB350189     1    26    26
browser |    26  100.0%          Y     -  31295520  31295545              AB350189     1    26    26
browser |    26  100.0%          Y     -  33168715  33168740              AB350189     1    26    26
browser |    26  100.0%          Y     +  35053798  35053823              AB350189     1    26    26
browser |    26  100.0%          Y     -  35707524  35707549              AB350189     1    26    26
browser |    26  100.0%          Y     -  39963261  39963286              AB350189     1    26    26
browser |    26  100.0%          Y     +  41057872  41057897              AB350189     1    26    26
browser |    26  100.0%          Y     -  42332304  42332329              AB350189     1    26    26
browser |    26  100.0%          Y     -  42468494  42468519              AB350189     1    26    26
browser |    26  100.0%          Y     +  43172465  43172490              AB350189     1    26    26
browser |    26  100.0%          Y     +  68889607  68889632              AB350189     1    26    26
browser |    26  100.0%          Y     -  76727268  76727293              AB350189     1    26    26
browser |    26  100.0%          Y     +  81107121  81107146              AB350189     1    26    26
browser |    26  100.0%          Y     -  82269897  82269922              AB350189     1    26    26
browser |    26  100.0%          Y     +  84720992  84721017              AB350189     1    26    26
browser |    26  100.0%          Y     +  87788869  87788894              AB350189     1    26    26

View details of parts of alignment within browser window
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View table schema

Go to Mouse mRNAs track controls

Data last updated at UCSC: 2020-08-18

Description

The mRNA track shows alignments between mouse 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 mouse 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