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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataatgttctatgtaatatacatggtccttggttaggcagtacaaccattttgttttacttctgcctctttgttaattccgaaatatatcatgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT

Basic information

species Zea mays
transcript GRMZM5G824831_T03
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G824831_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g42320.4 (Oryza sativa), 3'ss of exon 2
ataatgttctatgtaatatacatggtccttggtta--ggcagtacaaccattttgttttacttctgcctc--tttgttaattccgaaatatatc----atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT
      || | |||| | ||| || ||   |  ||  | | ||  |  |  ||   ||  ||| |  |    ||| || |||| ||  |||||     |||||||||||||| ||||||||||| || ||||||||||||||  |||||||||||||||| ||||||||||||
------ttttgtgtagt-tac-tgctcagagactacagtctgttgattctcttcagttcccttttagcctagtttattgattctgaggtatatttgttatgtttgcagCTGCTAATGGTGTAGTTATCGCCACTGAGAAGAAATTGCCTTCTATTTTAGTCGATGAAACATCT

upper sequence: GRMZM5G824831_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g42320.1 (Oryza sativa), 3'ss of exon 2
ataatgttctatgtaatatacatggtccttggtt--aggcagtacaaccattttgttttacttctgcctc--tttgttaattccgaaatatatc----atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT-----------------------------------
      || | |||| | ||| || ||   |  |  || | ||  |  |  ||   ||  ||| |  |    ||| || |||| ||  |||||     |||||||||||||| ||||||||||| || ||||||||||||||  |||||||||||||||| ||||||||||||                                   
------ttttgtgtagt-tac-tgctcagagactacagtctgttgattctcttcagttcccttttagcctagtttattgattctgaggtatatttgttatgtttgcagCTGCTAATGGTGTAGTTATCGCCACTGAGAAGAAATTGCCTTCTATTTTAGTCGATGAAACATCTGTAAGTCTAACATCACTCTTAATGCTGAATTCCTC

upper sequence: GRMZM5G824831_T04 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA01G25940.3 (Glycine max), 3'ss of exon 3
--ataatgttctatgtaatatacatggtccttggttaggcagtacaaccattttgttttacttctgcctctttgttaattccgaaatatatcatgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT
      ||| ||  ||    | |  |   ||||  |||   ||   |    | |  | ||  |     |  |  |||  |      | | | || ||||||||||| ||||| || ||||||||||| ||||||||  |||| ||||| || || ||||||||||| 
actctctgtgcttcgttgggttctcgtgtcttg--tagatggtttgaatcctgtaatgtatgttgtagttgtaattatatgtttggtttttaatttttgcagCTGCAAATGGAGTTGTCATTGCCACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAACATCA

upper sequence: GRMZM5G824831_T04 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA03G16660.1 (Glycine max), 3'ss of exon 3
ataatgttctatgtaatatacatggtccttg-gttaggcagtacaaccattttgttttacttctgcc-tctttgttaattccgaaatatatcatgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT
    |  ||| |||  |  |   ||| |||| ||   | ||   |      |  | | |  | |||  |  ||| | ||         | | ||  |||||||||| ||||| || |||||||| || ||||||||  |||| ||||| || || ||||||||||| 
--tttactctctgtggttcattgggttcttgtgtcttgtagatgatttggatcctctaatgtatgctgtagttgcttatatatttgattttgattcttgcagCTGCAAATGGAGTTGTCATTGCTACCGAGAAGAAATTGCCATCTATATTGGTTGATGAAACATCA

upper sequence: GRMZM5G824831_T04 (Zea mays), 3'ss of exon 3
lower sequence: AT1G16470.2 (Arabidopsis thaliana), 3'ss of exon 2
ataatgttctatgtaatatacatggtccttggttaggcagtacaaccattttgttttacttctgcctctttgttaattccgaaatatatcatgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT
    |  || |||| ||  |     |  ||  |    || |  ||   || |   || ||||||     ||| |  |||  |             ||||||| | ||||| || |||||||| ||||| |||||| ||||||||||| | || |||||| |||||
--gtttgtcaatgtcatg-atgaaattgtttatagatcaatgaaaaatttgtagatttcttctgataacttggt--ttctta------------ctgcagCTTCTAATGGAGTTGTCATTGCAACTGAAAAGAAGTTGCCTTCTATTCTGGTTGATGAAGCATCT

upper sequence: GRMZM5G824831_T04 (Zea mays), 3'ss of exon 3
lower sequence: Vv01s0011g01960.t01 (Vitis vinifera), 3'ss of exon 2
-ataatgttctatgtaatatacatggtccttggttaggcagtacaaccattttgttttacttc--tgcctctttgttaattccgaaatatatcatgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT
 ||   |    |||   |  |  || ||     || ||   ||     | ||  | ||    |  | ||  ||   |||| |       | | |    |||||||||||||||||| || ||||| ||||||||||| || |||||||| || ||||||||  |||| 
aatgtggcataatggttttgatttgttctcaaatttggtcatatttggagttcatcttgtcccattaccaattgactaatacttttgcctgttac---tgcagCTGCCAATGGTGTTGTTATTGCAACTGAGAAGAAACTACCTTCTATCTTGGTGGATGAGGCATCG

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|211252211|gb|FK953392.1|FK953392
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|71445140|gb|DR826190.1|DR826190
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211252219|gb|FK953400.1|FK953400
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211156519|gb|FL164233.1|FL164233
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211264908|gb|FL208724.1|FL208724
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|33098530|gb|CF058490.1|CF058490
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211156514|gb|FL164228.1|FL164228
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211153314|gb|FL164202.1|FL164202
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211252212|gb|FK953393.1|FK953393
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|74241051|gb|DT648965.1|DT648965
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211252213|gb|FK953394.1|FK953394
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAA
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAA
EST: gi|6952542|gb|AW424610.1|AW424610
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211264911|gb|FL208727.1|FL208727
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|148956338|gb|EC902144.2|EC902144
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211264912|gb|FL208728.1|FL208728
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|17970289|gb|BM277052.1|BM277052
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGGGTAGCCATGGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|148931204|gb|EC873960.2|EC873960
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211264909|gb|FL208725.1|FL208725
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGA-GAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|148952476|gb|EC898302.2|EC898302
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211156522|gb|FL164236.1|FL164236
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211264913|gb|FL208729.1|FL208729
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211264914|gb|FL208730.1|FL208730
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|149076954|gb|EE165611.2|EE165611
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|78112697|gb|DV531091.1|DV531091
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211252214|gb|FK953395.1|FK953395
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211154915|gb|FL164213.1|FL164213
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211149323|gb|FL312581.1|FL312581
EST:     AGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: AGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211264910|gb|FL208726.1|FL208726
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTG
EST: gi|211252217|gb|FK953398.1|FK953398
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|148987620|gb|EE031494.2|EE031494
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211154922|gb|FL164220.1|FL164220
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211252215|gb|FK953396.1|FK953396
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211156520|gb|FL164234.1|FL164234
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCNCTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|33094853|gb|CF054847.1|CF054847
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|32926059|gb|CF030871.1|CF030871
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|91875485|gb|EB405442.1|EB405442
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|71447361|gb|DR828411.1|DR828411
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211158115|gb|FL164244.1|FL164244
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211504926|gb|FL311934.1|FL311934
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAG
EST: gi|211252210|gb|FK953391.1|FK953391
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTATTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211264915|gb|FL208731.1|FL208731
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGC
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGC
EST: gi|32795340|gb|CD947576.1|CD947576
EST:     GATCCAGGCAGACCTCGCCCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211321302|gb|FL273340.1|FL273340
EST:     AGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAAAAGAAGCTGCCTTCTATTTTAG
genomic: AGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
EST: gi|211153313|gb|FL164201.1|FL164201
EST:     CACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGACTCGGGATCAAAG                         CTAGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTA
genomic: CACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCG-CTCGGGATCAAAGgttcgatctg ... atgtttgcagCT-GCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTA
EST: gi|211153309|gb|FL164197.1|FL164197
EST:     GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAG                         CTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG
genomic: GCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAG

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 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 561

TCCGTCGGGGAAGCTCGTGCAGATTGAGCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 395

TCCGTCGGGGAAGCTCGTGCAGATTGAGCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 438

TCCGTCGGGGAAGCTCGTGCAGATTGAGCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 370

TCCGTCGGGGAAGCTCGTGCAGATTGAGCACGCGCTCACGGCTGTCGGATCCGGGCAGACCTCGCTCGGGATCAAAGgttcgatctg ... atgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccattttgttttacttctgcctctttgttaattccgaaatatatcatgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT
                         tgttaat  putative branch site (score: 370)
                                    aaatatatcatgttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ataatgttctatgtaatatacatggtccttggttaggcagtacaaccattttgttttacttctgcctctttgttaattccgaaatatatcatgtttgcagCTGCCAATGGTGTAGTCATTGCCACTGAGAAGAAGCTGCCTTCTATTTTAGTGGATGAAACATCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA