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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tctcaatagccgtcttcgcttttaggcgaggttataagccattcaccattgaactcatcttttgtttaagttggttgttaatctattatttttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTCTGAAAGGAGGAGTTTGTTGGGTGAATCAAATGAG

Basic information

species Oryza sativa
transcript LOC_Os01g05490.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g05490.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G030784_T01 (Zea mays), 3'ss of exon 3
tctcaatagccgtcttcgcttttaggcgaggttataagccattcaccattgaact-catcttttgtttaagttggttgttaatcta--ttatttttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTCTGAAAGGAGGAGTTTGTTGGGTGAATCAAATGAG
   || |   | | |      | |  |     | |      |   | | |   || |||    | |     || |||  | | | |  | ||| ||||||||| ||||||||||| ||||||||| || |||||||||| |||||||||||||||||||||||   | || |||| ||||||||||| 
---cattctgcatgtataacctaattcagcactttgtatattgtgctaatacgcttcattcaatttcactattagttaatgaccaaagtcattattaatgcagTGCTGAGATGCTCGTCAACCTTGGTGTTCCCTGGGTCATTCTTGGACACTCTGAAAGGAGAGCTCTGCTGGGAGAATCAAATGAA

upper sequence: LOC_Os01g05490.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G018177_T01 (Zea mays), 3'ss of exon 3
---tctcaatagccgtcttcgcttttaggcgaggttataagccattcaccattgaactcatcttttgtttaagttggttgttaatctattatttttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTCTGAAAGGAGGAGTTTGTTGGGTGAATCAAATGAG
   |||  |||   ||       || ||  |    | ||   |  |         | | |  ||   | | ||||| ||   ||    | ||| || |||||| ||||||||||| ||||||||| |  |||||||||| |||||||||||||||||||||||   | || |||| ||||||||||||
cattctgcatatatgtaacataattcagcagtttgtgtattgcgcttgtttccccattgaatttcactattagttgattacgaa---gtcattattgatgcagTGCTGAGATGCTCGTCAACCTTGGCGTTCCCTGGGTCATTCTTGGACACTCTGAAAGGAGAGCTCTGCTGGGAGAATCAAATGAG

upper sequence: LOC_Os01g05490.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G018177_T03 (Zea mays), 3'ss of exon 3
---tctcaatagccgtcttcgcttttaggcgaggttataagccattcaccattgaactcatcttttgtttaagttggttgttaatctattatttttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTCTGAAAGGAGGAGTTTGTTGGGTGAATCAAATGAG---------------
   |||  |||   ||       || ||  |    | ||   |  |         | | |  ||   | | ||||| ||   ||    | ||| || |||||| ||||||||||| ||||||||| |  |||||||||| |||||||||||||||||||||||   | || |||| ||||||||||||               
cattctgcatatatgtaacataattcagcagtttgtgtattgcgcttgtttccccattgaatttcactattagttgattacgaa---gtcattattgatgcagTGCTGAGATGCTCGTCAACCTTGGCGTTCCCTGGGTCATTCTTGGACACTCTGAAAGGAGAGCTCTGCTGGGAGAATCAAATGAGGTATGATCCATGTCA

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|9884572|gb|BE607405.1|BE607405
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|88428457|gb|CI564925.1|CI564925
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|88329671|gb|CI650137.1|CI650137
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|33809280|gb|CF330521.1|CF330521
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|163920975|gb|EG710112.1|EG710112
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|33807203|gb|CF329482.1|CF329482
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|396941501|gb|HO188710.1|HO188710
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|55432246|gb|CV729143.1|CV729143
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|14981165|gb|BI305843.1|BI305843
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|27577728|gb|CB000423.1|CB000423
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|218483167|gb|FG943231.1|FG943231
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|33685619|gb|CF313858.1|CF313858
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|88582134|gb|CI699369.1|CI699369
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|4715957|gb|AU057073.1|AU057073
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|11863261|gb|AU063171.2|AU063171
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|13420898|gb|AU174988.1|AU174988
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATT
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATT
EST: gi|58604231|gb|CK014759.1|CK014759
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|12405253|gb|AU166854.1|AU166854
EST:     GCTCANAATTGTTGGGTGAANAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|33687307|gb|CF315546.1|CF315546
EST:     GCTCAAAATTGTTGGGTGAAGAAAGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|88404380|gb|CI578257.1|CI578257
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|88586073|gb|CI703755.1|CI703755
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|27554111|gb|CA998011.1|CA998011
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|66922499|gb|CX109347.1|CX109347
EST:     CTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCTGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: CTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACC-GGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|58686470|gb|CK075157.1|CK075157
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|38480889|gb|CF964978.1|CF964978
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|163929017|gb|EG709795.1|EG709795
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|88331636|gb|CI675981.1|CI675981
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|300215919|gb|HO088545.1|HO088545
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|58676943|gb|CK065630.1|CK065630
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|319908632|gb|HS977760.1|HS977760
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|300216330|gb|HO088115.1|HO088115
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|33663593|gb|CF294560.1|CF294560
EST:     GCTCANAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|2443014|gb|C74785.1|C74785
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|13896023|gb|AU182359.1|AU182359
EST:     GCTCANAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTNAG                         CGCTGAGATGCTTGTNAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|38473212|gb|CF957344.1|CF957344
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|163921200|gb|EG714125.1|EG714125
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|27576696|gb|CA999390.1|CA999390
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|88592661|gb|CI710780.1|CI710780
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|218498238|gb|FG970096.1|FG970096
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|13806459|gb|AU181529.1|AU181529
EST:     GCTCANAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|33691197|gb|CF319436.1|CF319436
EST:     GCTCAAAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|27577196|gb|CA999890.1|CA999890
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|27554252|gb|CA998152.1|CA998152
EST:     GCTCACAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|33662374|gb|CF293341.1|CF293341
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|58668510|gb|CK057196.1|CK057196
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|88372072|gb|CI641707.1|CI641707
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|33692821|gb|CF321060.1|CF321060
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|163927169|gb|EG715190.1|EG715190
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|88590954|gb|CI707857.1|CI707857
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
EST: gi|88338586|gb|CI645840.1|CI645840
EST:     GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAG                         CGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC
genomic: GCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTC

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 73 (upstream exon), 75 (downstream exon)
Score: 235

TGTTCCTTCCCGTGGTCAAGAGTCAGCTGCGCCCGGAGATCCAAGTTGCTGCTCAGAATTGTTGGGTGAAGAAGGGCGGGGCTTTCACCGGTGAGGTCAGgttagttatc ... tttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTCTGAAAGGAGGAGTTTGTTGGGTGAATCAAATGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccattgaactcatcttttgtttaagttggttgttaatctattatttttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTCTGAAAGGAGGAGTTTGTTGGGTGAATCAAATGAG
                                            ttttaat  putative branch site (score: 235)
                                        ttattttt  CT-rich tract
                             ttgttaatctattatt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tctcaatagccgtcttcgcttttaggcgaggttataagccattcaccattgaactcatcttttgtttaagttggttgttaatctattatttttaatgcagCGCTGAGATGCTTGTCAACCTTAGTATTCCCTGGGTTATTCTTGGACACTCTGAAAGGAGGAGTTTGTTGGGTGAATCAAATGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - -cattcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttgtta