AB350595
 

Information on mRNA AB350595

Description: Mus musculus non-coding RNA, oocyte_piRNA1411, 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: AB350595
Position: chr12:56798261-56798281

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 |    21  100.0%         12     -  56798261  56798281              AB350595     1    21    21
browser |    21  100.0%          1     +   6239043   6239063              AB350595     1    21    21
browser |    21  100.0%          1     +  23340893  23340913              AB350595     1    21    21
browser |    21  100.0%          1     -  26392738  26392758              AB350595     1    21    21
browser |    21  100.0%          1     -  26514593  26514613              AB350595     1    21    21
browser |    21  100.0%          1     +  27219937  27219957              AB350595     1    21    21
browser |    21  100.0%          1     -  29987696  29987716              AB350595     1    21    21
browser |    21  100.0%          1     +  35828275  35828295              AB350595     1    21    21
browser |    21  100.0%          1     +  38744643  38744663              AB350595     1    21    21
browser |    21  100.0%          1     +  40737904  40737924              AB350595     1    21    21
browser |    21  100.0%          1     -  58857320  58857340              AB350595     1    21    21
browser |    21  100.0%          1     -  62579647  62579667              AB350595     1    21    21
browser |    21  100.0%          1     -  65005833  65005853              AB350595     1    21    21
browser |    21  100.0%          1     -  67796984  67797004              AB350595     1    21    21
browser |    21  100.0%          1     -  69741679  69741699              AB350595     1    21    21
browser |    21  100.0%          1     +  70276931  70276951              AB350595     1    21    21
browser |    21  100.0%          1     +  77645044  77645064              AB350595     1    21    21
browser |    21  100.0%          1     +  82479435  82479455              AB350595     1    21    21
browser |    21  100.0%          1     -  84977575  84977595              AB350595     1    21    21
browser |    21  100.0%          1     +  89127521  89127541              AB350595     1    21    21
browser |    21  100.0%          1     + 102960101 102960121              AB350595     1    21    21
browser |    21  100.0%          1     + 103517245 103517265              AB350595     1    21    21
browser |    21  100.0%          1     + 109541846 109541866              AB350595     1    21    21
browser |    21  100.0%          1     + 112944512 112944532              AB350595     1    21    21
browser |    21  100.0%          1     - 127824214 127824234              AB350595     1    21    21
browser |    21  100.0%          1     + 130462717 130462737              AB350595     1    21    21
browser |    21  100.0%          1     - 137205309 137205329              AB350595     1    21    21
browser |    21  100.0%          1     + 140745294 140745314              AB350595     1    21    21
browser |    21  100.0%          1     - 144736799 144736819              AB350595     1    21    21
browser |    21  100.0%          1     - 146279312 146279332              AB350595     1    21    21
browser |    21  100.0%          1     - 148049422 148049442              AB350595     1    21    21
browser |    21  100.0%          1     - 149396417 149396437              AB350595     1    21    21
browser |    21  100.0%          1     + 149457970 149457990              AB350595     1    21    21
browser |    21  100.0%          1     - 160647880 160647900              AB350595     1    21    21
browser |    21  100.0%          1     + 169370666 169370686              AB350595     1    21    21
browser |    21  100.0%          1     + 169944044 169944064              AB350595     1    21    21
browser |    21  100.0%          1     - 174875140 174875160              AB350595     1    21    21
browser |    21  100.0%          1     - 181097458 181097478              AB350595     1    21    21
browser |    21  100.0%          1     + 181321151 181321171              AB350595     1    21    21
browser |    21  100.0%         10     -   3557331   3557351              AB350595     1    21    21
browser |    21  100.0%         10     -  19421056  19421076              AB350595     1    21    21
browser |    21  100.0%         10     +  19673737  19673757              AB350595     1    21    21
browser |    21  100.0%         10     +  21087967  21087987              AB350595     1    21    21
browser |    21  100.0%         10     -  21524584  21524604              AB350595     1    21    21
browser |    21  100.0%         10     +  30690684  30690704              AB350595     1    21    21
browser |    21  100.0%         10     +  31359302  31359322              AB350595     1    21    21
browser |    21  100.0%         10     +  33763656  33763676              AB350595     1    21    21
browser |    21  100.0%         10     +  47547367  47547387              AB350595     1    21    21
browser |    21  100.0%         10     +  50368142  50368162              AB350595     1    21    21
browser |    21  100.0%         10     +  56597568  56597588              AB350595     1    21    21
browser |    21  100.0%         10     +  70627912  70627932              AB350595     1    21    21
browser |    21  100.0%         10     +  77787263  77787283              AB350595     1    21    21
browser |    21  100.0%         10     -  78658188  78658208              AB350595     1    21    21
browser |    21  100.0%         10     +  81804419  81804439              AB350595     1    21    21
browser |    21  100.0%         10     +  85551753  85551773              AB350595     1    21    21
browser |    21  100.0%         10     -  96034855  96034875              AB350595     1    21    21
browser |    21  100.0%         10     +  99175622  99175642              AB350595     1    21    21
browser |    21  100.0%         10     + 104391825 104391845              AB350595     1    21    21
browser |    21  100.0%         10     + 110532838 110532858              AB350595     1    21    21
browser |    21  100.0%         10     + 121001331 121001351              AB350595     1    21    21
browser |    21  100.0%         10     - 122206186 122206206              AB350595     1    21    21
browser |    21  100.0%         10     + 124412900 124412920              AB350595     1    21    21
browser |    21  100.0%         11     -   6097928   6097948              AB350595     1    21    21
browser |    21  100.0%         11     +  10711019  10711039              AB350595     1    21    21
browser |    21  100.0%         11     -  12461757  12461777              AB350595     1    21    21
browser |    21  100.0%         11     +  12512587  12512607              AB350595     1    21    21
browser |    21  100.0%         11     +  15178423  15178443              AB350595     1    21    21
browser |    21  100.0%         11     +  22528511  22528531              AB350595     1    21    21
browser |    21  100.0%         11     -  23174965  23174985              AB350595     1    21    21
browser |    21  100.0%         11     -  23196581  23196601              AB350595     1    21    21
browser |    21  100.0%         11     +  26506262  26506282              AB350595     1    21    21
browser |    21  100.0%         11     +  28047990  28048010              AB350595     1    21    21
browser |    21  100.0%         11     -  51560330  51560350              AB350595     1    21    21
browser |    21  100.0%         11     +  63359292  63359312              AB350595     1    21    21
browser |    21  100.0%         11     -  66844469  66844489              AB350595     1    21    21
browser |    21  100.0%         11     -  74116855  74116875              AB350595     1    21    21
browser |    21  100.0%         11     +  74775920  74775940              AB350595     1    21    21
browser |    21  100.0%         11     -  82228458  82228478              AB350595     1    21    21
browser |    21  100.0%         11     +  90793246  90793266              AB350595     1    21    21
browser |    21  100.0%         11     -  90857400  90857420              AB350595     1    21    21
browser |    21  100.0%         11     +  91990592  91990612              AB350595     1    21    21
browser |    21  100.0%         11     + 100554410 100554430              AB350595     1    21    21
browser |    21  100.0%         11     - 106187712 106187732              AB350595     1    21    21
browser |    21  100.0%         11     - 108294425 108294445              AB350595     1    21    21
browser |    21  100.0%         11     + 108541523 108541543              AB350595     1    21    21
browser |    21  100.0%         11     + 109911240 109911260              AB350595     1    21    21
browser |    21  100.0%         11     + 113803692 113803712              AB350595     1    21    21
browser |    21  100.0%         11     + 116677128 116677148              AB350595     1    21    21
browser |    21  100.0%         12     +   6853699   6853719              AB350595     1    21    21
browser |    21  100.0%         12     +   8454032   8454052              AB350595     1    21    21
browser |    21  100.0%         12     -  11160024  11160044              AB350595     1    21    21
browser |    21  100.0%         12     -  19314688  19314708              AB350595     1    21    21
browser |    21  100.0%         12     +  41414238  41414258              AB350595     1    21    21
browser |    21  100.0%         12     -  44818327  44818347              AB350595     1    21    21
browser |    21  100.0%         12     +  48579689  48579709              AB350595     1    21    21
browser |    21  100.0%         12     +  59487822  59487842              AB350595     1    21    21
browser |    21  100.0%         12     -  68674934  68674954              AB350595     1    21    21
browser |    21  100.0%         12     +  68792789  68792809              AB350595     1    21    21
browser |    21  100.0%         12     -  73361801  73361821              AB350595     1    21    21
browser |    21  100.0%         12     -  79615050  79615070              AB350595     1    21    21
browser |    21  100.0%         12     +  80464820  80464840              AB350595     1    21    21
browser |    21  100.0%         12     -  82512305  82512325              AB350595     1    21    21
browser |    21  100.0%         13     -   8005553   8005573              AB350595     1    21    21
browser |    21  100.0%         13     -   9489058   9489078              AB350595     1    21    21
browser |    21  100.0%         13     +  11516689  11516709              AB350595     1    21    21
browser |    21  100.0%         13     -  21820367  21820387              AB350595     1    21    21
browser |    21  100.0%         13     +  26551778  26551798              AB350595     1    21    21
browser |    21  100.0%         13     -  28314758  28314778              AB350595     1    21    21
browser |    21  100.0%         13     +  33622326  33622346              AB350595     1    21    21
browser |    21  100.0%         13     +  34046709  34046729              AB350595     1    21    21
browser |    21  100.0%         13     -  34357154  34357174              AB350595     1    21    21
browser |    21  100.0%         13     +  37221390  37221410              AB350595     1    21    21
browser |    21  100.0%         13     +  43540948  43540968              AB350595     1    21    21
browser |    21  100.0%         13     +  44418532  44418552              AB350595     1    21    21
browser |    21  100.0%         13     +  45165318  45165338              AB350595     1    21    21
browser |    21  100.0%         13     -  46536041  46536061              AB350595     1    21    21
browser |    21  100.0%         13     -  51424249  51424269              AB350595     1    21    21
browser |    21  100.0%         13     +  52140258  52140278              AB350595     1    21    21
browser |    21  100.0%         13     -  52542523  52542543              AB350595     1    21    21
browser |    21  100.0%         13     -  56867061  56867081              AB350595     1    21    21
browser |    21  100.0%         13     -  60175818  60175838              AB350595     1    21    21
browser |    21  100.0%         13     -  62627222  62627242              AB350595     1    21    21
browser |    21  100.0%         13     -  63310839  63310859              AB350595     1    21    21
browser |    21  100.0%         13     +  66160789  66160809              AB350595     1    21    21
browser |    21  100.0%         13     +  66377731  66377751              AB350595     1    21    21
browser |    21  100.0%         13     -  77822624  77822644              AB350595     1    21    21
browser |    21  100.0%         13     +  82039789  82039809              AB350595     1    21    21
browser |    21  100.0%         13     +  83567839  83567859              AB350595     1    21    21
browser |    21  100.0%         13     +  86861645  86861665              AB350595     1    21    21
browser |    21  100.0%         13     +  86921607  86921627              AB350595     1    21    21
browser |    21  100.0%         13     +  94872676  94872696              AB350595     1    21    21
browser |    21  100.0%         13     -  98466200  98466220              AB350595     1    21    21
browser |    21  100.0%         13     + 102964310 102964330              AB350595     1    21    21
browser |    21  100.0%         13     - 108138605 108138625              AB350595     1    21    21
browser |    21  100.0%         13     - 113702161 113702181              AB350595     1    21    21
browser |    21  100.0%         13     - 114679416 114679436              AB350595     1    21    21
browser |    21  100.0%         13     + 117433112 117433132              AB350595     1    21    21
browser |    21  100.0%         13     - 119271242 119271262              AB350595     1    21    21
browser |    21  100.0%         13     + 120686889 120686909              AB350595     1    21    21
browser |    21  100.0%         14     +   3457377   3457397              AB350595     1    21    21
browser |    21  100.0%         14     +   4323581   4323601              AB350595     1    21    21
browser |    21  100.0%         14     +  15112790  15112810              AB350595     1    21    21
browser |    21  100.0%         14     +  19591946  19591966              AB350595     1    21    21
browser |    21  100.0%         14     +  21411268  21411288              AB350595     1    21    21
browser |    21  100.0%         14     -  23025609  23025629              AB350595     1    21    21
browser |    21  100.0%         14     -  32121604  32121624              AB350595     1    21    21
browser |    21  100.0%         14     -  34110198  34110218              AB350595     1    21    21
browser |    21  100.0%         14     +  35614556  35614576              AB350595     1    21    21
browser |    21  100.0%         14     +  35921388  35921408              AB350595     1    21    21
browser |    21  100.0%         14     -  36957509  36957529              AB350595     1    21    21
browser |    21  100.0%         14     +  38177735  38177755              AB350595     1    21    21
browser |    21  100.0%         14     -  41185993  41186013              AB350595     1    21    21
browser |    21  100.0%         14     +  42598259  42598279              AB350595     1    21    21
browser |    21  100.0%         14     +  51118347  51118367              AB350595     1    21    21
browser |    21  100.0%         14     -  53001745  53001765              AB350595     1    21    21
browser |    21  100.0%         14     -  53716434  53716454              AB350595     1    21    21
browser |    21  100.0%         14     +  58290740  58290760              AB350595     1    21    21
browser |    21  100.0%         14     -  64705282  64705302              AB350595     1    21    21
browser |    21  100.0%         14     +  66700862  66700882              AB350595     1    21    21
browser |    21  100.0%         14     -  68250696  68250716              AB350595     1    21    21
browser |    21  100.0%         14     -  68919795  68919815              AB350595     1    21    21
browser |    21  100.0%         14     +  71359330  71359350              AB350595     1    21    21
browser |    21  100.0%         14     +  75663440  75663460              AB350595     1    21    21
browser |    21  100.0%         14     +  78572969  78572989              AB350595     1    21    21
browser |    21  100.0%         14     -  80036584  80036604              AB350595     1    21    21
browser |    21  100.0%         14     -  85762248  85762268              AB350595     1    21    21
browser |    21  100.0%         14     +  86828636  86828656              AB350595     1    21    21
browser |    21  100.0%         14     -  88277527  88277547              AB350595     1    21    21
browser |    21  100.0%         14     +  90532807  90532827              AB350595     1    21    21
browser |    21  100.0%         14     + 100486718 100486738              AB350595     1    21    21
browser |    21  100.0%         14     - 104348695 104348715              AB350595     1    21    21
browser |    21  100.0%         14     - 104826433 104826453              AB350595     1    21    21
browser |    21  100.0%         14     - 105450951 105450971              AB350595     1    21    21
browser |    21  100.0%         14     + 106209218 106209238              AB350595     1    21    21
browser |    21  100.0%         14     - 110599714 110599734              AB350595     1    21    21
browser |    21  100.0%         14     - 111104753 111104773              AB350595     1    21    21
browser |    21  100.0%         14     + 114743929 114743949              AB350595     1    21    21
browser |    21  100.0%         14     - 117320190 117320210              AB350595     1    21    21
browser |    21  100.0%         14     - 119720256 119720276              AB350595     1    21    21
browser |    21  100.0%         15     -   4887946   4887966              AB350595     1    21    21
browser |    21  100.0%         15     +   7941035   7941055              AB350595     1    21    21
browser |    21  100.0%         15     -  12062462  12062482              AB350595     1    21    21
browser |    21  100.0%         15     -  17163358  17163378              AB350595     1    21    21
browser |    21  100.0%         15     +  19049947  19049967              AB350595     1    21    21
browser |    21  100.0%         15     -  23246838  23246858              AB350595     1    21    21
browser |    21  100.0%         15     -  39202539  39202559              AB350595     1    21    21
browser |    21  100.0%         15     +  39578038  39578058              AB350595     1    21    21
browser |    21  100.0%         15     +  43194806  43194826              AB350595     1    21    21
browser |    21  100.0%         15     +  47220629  47220649              AB350595     1    21    21
browser |    21  100.0%         15     -  54050623  54050643              AB350595     1    21    21
browser |    21  100.0%         15     -  73751380  73751400              AB350595     1    21    21
browser |    21  100.0%         15     -  74239026  74239046              AB350595     1    21    21
browser |    21  100.0%         15     -  75083895  75083915              AB350595     1    21    21
browser |    21  100.0%         15     -  82481420  82481440              AB350595     1    21    21
browser |    21  100.0%         15     -  86200932  86200952              AB350595     1    21    21
browser |    21  100.0%         15     -  90527106  90527126              AB350595     1    21    21
browser |    21  100.0%         15     +  96876647  96876667              AB350595     1    21    21
browser |    21  100.0%         16     -   4567651   4567671              AB350595     1    21    21
browser |    21  100.0%         16     -  12924071  12924091              AB350595     1    21    21
browser |    21  100.0%         16     +  15321350  15321370              AB350595     1    21    21
browser |    21  100.0%         16     -  19861790  19861810              AB350595     1    21    21
browser |    21  100.0%         16     -  31397090  31397110              AB350595     1    21    21
browser |    21  100.0%         16     +  32015138  32015158              AB350595     1    21    21
browser |    21  100.0%         16     +  34403452  34403472              AB350595     1    21    21
browser |    21  100.0%         16     +  50730939  50730959              AB350595     1    21    21
browser |    21  100.0%         16     -  54876528  54876548              AB350595     1    21    21
browser |    21  100.0%         16     -  60752504  60752524              AB350595     1    21    21
browser |    21  100.0%         16     -  61136404  61136424              AB350595     1    21    21
browser |    21  100.0%         16     +  66039624  66039644              AB350595     1    21    21
browser |    21  100.0%         16     -  71588829  71588849              AB350595     1    21    21
browser |    21  100.0%         16     -  71819962  71819982              AB350595     1    21    21
browser |    21  100.0%         16     -  74575183  74575203              AB350595     1    21    21
browser |    21  100.0%         16     +  75854577  75854597              AB350595     1    21    21
browser |    21  100.0%         16     +  75858335  75858355              AB350595     1    21    21
browser |    21  100.0%         16     +  79740865  79740885              AB350595     1    21    21
browser |    21  100.0%         16     +  80085421  80085441              AB350595     1    21    21
browser |    21  100.0%         16     -  80563160  80563180              AB350595     1    21    21
browser |    21  100.0%         16     +  80869461  80869481              AB350595     1    21    21
browser |    21  100.0%         16     +  82381045  82381065              AB350595     1    21    21
browser |    21  100.0%         16     -  87087495  87087515              AB350595     1    21    21
browser |    21  100.0%         16     -  88965250  88965270              AB350595     1    21    21
browser |    21  100.0%         17     -  10005921  10005941              AB350595     1    21    21
browser |    21  100.0%         17     +  13634528  13634548              AB350595     1    21    21
browser |    21  100.0%         17     -  21565577  21565597              AB350595     1    21    21
browser |    21  100.0%         17     -  33843620  33843640              AB350595     1    21    21
browser |    21  100.0%         17     +  35587004  35587024              AB350595     1    21    21
browser |    21  100.0%         17     -  36366293  36366313              AB350595     1    21    21
browser |    21  100.0%         17     -  41296398  41296418              AB350595     1    21    21
browser |    21  100.0%         17     -  47395376  47395396              AB350595     1    21    21
browser |    21  100.0%         17     +  52172159  52172179              AB350595     1    21    21
browser |    21  100.0%         17     +  64069334  64069354              AB350595     1    21    21
browser |    21  100.0%         17     -  65468085  65468105              AB350595     1    21    21
browser |    21  100.0%         17     +  69638033  69638053              AB350595     1    21    21
browser |    21  100.0%         17     -  69848448  69848468              AB350595     1    21    21
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browser |    21  100.0%          9     -  76645848  76645868              AB350595     1    21    21
browser |    21  100.0%          9     -  78736940  78736960              AB350595     1    21    21
browser |    21  100.0%          9     +  83825490  83825510              AB350595     1    21    21
browser |    21  100.0%          9     -  86987259  86987279              AB350595     1    21    21
browser |    21  100.0%          9     +  87374371  87374391              AB350595     1    21    21
browser |    21  100.0%          9     -  92512832  92512852              AB350595     1    21    21
browser |    21  100.0%          9     - 114913525 114913545              AB350595     1    21    21
browser |    21  100.0%          9     - 121241870 121241890              AB350595     1    21    21
browser |    21  100.0%          X     -   3421696   3421716              AB350595     1    21    21
browser |    21  100.0%          X     -  13822389  13822409              AB350595     1    21    21
browser |    21  100.0%          X     -  29428581  29428601              AB350595     1    21    21
browser |    21  100.0%          X     -  31707980  31708000              AB350595     1    21    21
browser |    21  100.0%          X     -  51086773  51086793              AB350595     1    21    21
browser |    21  100.0%          X     -  53233727  53233747              AB350595     1    21    21
browser |    21  100.0%          X     +  57404720  57404740              AB350595     1    21    21
browser |    21  100.0%          X     +  64751206  64751226              AB350595     1    21    21
browser |    21  100.0%          X     +  65802639  65802659              AB350595     1    21    21
browser |    21  100.0%          X     +  71986256  71986276              AB350595     1    21    21
browser |    21  100.0%          X     +  74626497  74626517              AB350595     1    21    21
browser |    21  100.0%          X     -  80808589  80808609              AB350595     1    21    21
browser |    21  100.0%          X     -  88567863  88567883              AB350595     1    21    21
browser |    21  100.0%          X     -  90944774  90944794              AB350595     1    21    21
browser |    21  100.0%          X     -  93732432  93732452              AB350595     1    21    21
browser |    21  100.0%          X     +  96227260  96227280              AB350595     1    21    21
browser |    21  100.0%          X     - 105737872 105737892              AB350595     1    21    21
browser |    21  100.0%          X     - 111658157 111658177              AB350595     1    21    21
browser |    21  100.0%          X     - 113210527 113210547              AB350595     1    21    21
browser |    21  100.0%          X     + 115562132 115562152              AB350595     1    21    21
browser |    21  100.0%          X     + 119887205 119887225              AB350595     1    21    21
browser |    21  100.0%          X     - 122477103 122477123              AB350595     1    21    21
browser |    21  100.0%          X     + 122906820 122906840              AB350595     1    21    21
browser |    21  100.0%          X     + 126073351 126073371              AB350595     1    21    21
browser |    21  100.0%          X     - 126843203 126843223              AB350595     1    21    21
browser |    21  100.0%          X     - 130245787 130245807              AB350595     1    21    21
browser |    21  100.0%          X     + 144713963 144713983              AB350595     1    21    21
browser |    21  100.0%          X     - 145483196 145483216              AB350595     1    21    21
browser |    21  100.0%          X     + 151678380 151678400              AB350595     1    21    21
browser |    21  100.0%          X     - 151980174 151980194              AB350595     1    21    21
browser |    21  100.0%          X     - 154638569 154638589              AB350595     1    21    21
browser |    21  100.0%          X     + 155363541 155363561              AB350595     1    21    21
browser |    21  100.0%          Y     +  21226785  21226805              AB350595     1    21    21
browser |    21  100.0%          Y     -  42194850  42194870              AB350595     1    21    21
browser |    21  100.0%          Y     +  89137005  89137025              AB350595     1    21    21

View details of parts of alignment within browser window
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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