Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cccccccccccaaaaaaaaaagtagtgtaattcatttatattgtcatccgtttggtatccaaattggttgcgatggtaatgttatggcctcttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTGCCATACTTCTACTCCCGATCATTCGACCTGGCGTGGCAATTCTACGGCG

Basic information

species Zea mays
transcript GRMZM2G084881_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G084881_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os09g39380.1 (Oryza sativa), 3'ss of exon 10
cccccccccccaaaaaaaaaagtagtgtaattcatttatattgtcatccgtttggtatccaaattggttgcgatgg-taatgttatggcctcttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTGCCATACTTCTACTCCCGATCATTCGACCTGGCGTGGCAATTCTACGGCG
| |        |     |  |  |        || || |     | |    | || ||     |    |    | | |       ||     || |||||||| |||||||| ||||||||||| ||  | |||  |||||||||||| |||||||||||||||||||| |||||||||||||  ||||||||||||||||
cgcttgtgttgattctgattaccaacaggcaacagttgtggctac-ttaactcggaatagggttatcatatcttagcttgaaccctgcatctttgtttcagGCAATCAAGGGAAAAGAGTCCGGCGAGTCCGTTGTGGAGTATGACTATCTGCCATACTTCTACTCCCGGTCATTCGACCTGGGATGGCAATTCTACGGCG

upper sequence: GRMZM2G084881_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA10G07820.1 (Glycine max), 3'ss of exon 9
--------------------------------------------------------------------cccccccccccaaaaaaaaaagtagtgtaa----ttcatttatattgtcatccgtttggta--tccaaat----------tggttgcgatggta------atgttatggcctcttatttca----gGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTGCCATACTTCTACTCCCGATCATTCGACCTGGCGTGGCAATTCTACGGCG
                                                                     | |   |     |  | | |   |  |||    ||  ||| | | ||| |||   | | |  | ||| |          || ||||  || |       ||  | ||    ||| ||| |    ||| |||||||     |||   ||  || |||||  ||||||||| ||||| ||||||||||| ||||| |||||||| ||| | ||||||||||| ||||
gtaagtagcttacctaaatttgtcagctcatgcacaatatacatatttatcattgccccggcatgctctctctagctattcagtagatatctgcttaaacgttttttttttctggtcctccaaatcgaagtttcaagtaaagagccaatgcttgcagtgctgtttctcattctgtgattacttgttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAAAACAGTTGAGGAGTATGATTACCTTCCATACTTCTATTCCCGTTCATTCGATCTGTCTTGGCAATTCTATGGCG

upper sequence: GRMZM2G084881_T02 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA0169S00210.1 (Glycine max), 3'ss of exon 9
------------------------------------------------------------------------------------------------------cccccccccccaaaaaaaaaagtagtgtaattcatttatattgtcatccgtttggtatccaaattggttgcgatggtaatgttatggcctcttattt-cagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTGCCATACTTCTACTCCCGATCATTCGACCTGGCGTGGCAATTCTACGGCG
                                                                                                        |     |         |||  |  ||  |||   || |  | ||| | |   |  | ||     ||| |  |  |  ||| ||  | | || | |  |||| |||||||     |||   ||   | |||||  ||||||||| ||||| ||||||||||| ||||| ||||| || ||| | ||||||||||| ||||
gtaagtagcttacctaaatttgtgagctcatgcacaaaatacatatttatcattgccccggcatgccctctctagctaattagtagatatctgcttaaacgtttctttttctggtcctccaaatcaaagt--ttccagtaaagagccatgcttgcagactgcagtgctgtttc--tcattctgtgataacttgttttatgtagGCCATCAAGGCAGCTGAGGAAGGAAGAACAGTTGAGGAGTATGATTACCTTCCATACTTCTATTCCCGTTCATTTGATCTGTCTTGGCAATTCTATGGCG

upper sequence: GRMZM2G084881_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv08s0007g03610.t01 (Vitis vinifera), 3'ss of exon 9
--cccccccccccaaaaaaaaaagtagtgtaattcatttatattgtcatccgtttggtatccaaattggttgcgatggtaatgttatggcctcttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTGCCATACTTCTACTCCCGATCATTCGACCTGGCGTGGCAATTCTACGGCG
        |  |||  |  |    |   ||  |  |  ||||   | |    |    | |    | ||  | |  ||      || |||| | ||  | ||||| |||||||  |  |||   ||  || |||||  ||||||||||||||| |||||||||||||| ||  | || || ||| | ||||| ||||| || |
ctttttttctgccatgatcattccttaggtgctcaaaatatac-attagatatgcatttttaggagtgaat-cagtgaattacttctggcttgtttatgcagGCAATCAAGGCAAGTGAGGAAGGGAAATCAGTTGAGGAGTATGACTACCTTCCATACTTCTACTCTCGTGCCTTTGATCTGTCCTGGCAGTTCTATGGTG

upper sequence: GRMZM2G084881_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ06061 (Selaginella moellendorffii), 3'ss of exon 8
cccccccccccaaaaaaaaaagtagtgtaattcatttatattgtcatccgtttggtatccaaattggttgcgatggtaatgttatggcctcttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTGCCATACTTCTACTCCCGATCATTCGACCTGGCGTGGCAATTCTACGGCG
                                          || |  |     ||  | ||| |  |||      ||||| |    |||| |  | ||||| ||||||| ||| ||    |||    |  | ||||||||||||||||| || | ||| ||||||||  | ||||| ||| ||||||||||||| || |
------------------------------------------gtaagtcacggagtg-ctaaaatatttgttgct-taatgct----cctcgt-ctgcagGCAATCAAGGCCAAGGAAGAAGGTCGTTCCATCCCGGAGTATGACTACCTCCCCTTCTTTTACTCCCGTGCTTTCGATCTGTCGTGGCAATTCTATGGTG

upper sequence: GRMZM2G084881_T02 (Zea mays), 3'ss of exon 1
lower sequence: EFJ30171 (Selaginella moellendorffii), 3'ss of exon 8
cccccccccccaaaaaaaaaagtagtgtaattcatttatattgtcatccgtttggtatccaaattggttgcgatggtaatgttatggcctcttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTGCCATACTTCTACTCCCGATCATTCGACCTGGCGTGGCAATTCTACGGCG
                                          || |  |     ||   |||||   |   | |  ||| | |    ||||||  | ||||| ||||||| ||| ||    |||    |  | ||||||||||||||||| || | ||| ||||||||  | ||||| ||| ||||||||||||| || |
------------------------------------------gtaagtcacggtgtgctcaaatatttgttgct--taacgct----cctctt-ctgcagGCAATCAAGGCCAAGGAAGAAGGTCGTTCCATCCCGGAGTATGACTACCTCCCCTTCTTTTACTCCCGTGCTTTCGATCTGTCGTGGCAATTCTATGGTG

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|33103343|gb|CF063303.1|CF063303
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|40335999|gb|CK370069.1|CK370069
EST:     GTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCTATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|32838588|gb|CD978266.1|CD978266
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|18181305|gb|BM382515.1|BM382515
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|6672243|gb|AW282409.1|AW282409
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|50335366|gb|CO530492.1|CO530492
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|213174582|gb|FM195806.1|FM195806
EST:     GAGTGGAACATGTTGACCATTCTGGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|67015015|gb|CO443764.1|CO443764
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|37388695|gb|CF631559.1|CF631559
EST:     ATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: ATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|37378557|gb|CF625973.1|CF625973
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|60343226|gb|DN210199.1|DN210199
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|37390047|gb|CF632249.1|CF632249
EST:     GTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|67020428|gb|CO449177.1|CO449177
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|60672306|gb|DN475070.1|DN475070
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|32867410|gb|CF007092.1|CF007092
EST:     GAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|32867411|gb|CF007093.1|CF007093
EST:     GAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|149082322|gb|EE171505.2|EE171505
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|32865212|gb|CF004894.1|CF004894
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|18179641|gb|BM380851.1|BM380851
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|60351729|gb|DN218702.1|DN218702
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|32857765|gb|CD997446.1|CD997446
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|4646790|gb|AI621865.1|AI621865
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|37395261|gb|CF634910.1|CF634910
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|60350416|gb|DN217389.1|DN217389
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|211265945|gb|FL023468.1|FL023468
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTYTGCAGAGCARGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|37381442|gb|CF627607.1|CF627607
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|211319162|gb|FL268455.1|FL268455
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGWTCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|60345769|gb|DN212742.1|DN212742
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|14243864|gb|BG841582.2|BG841582
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|211263517|gb|FL023466.1|FL023466
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|61118759|gb|DN559720.1|DN559720
EST:     ATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: ATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|211265947|gb|FL023470.1|FL023470
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCARGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCARTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|211265946|gb|FL023469.1|FL023469
EST:     GAGTGGAACATGTTGACCATTCTARAAAGTCTGCAGAGCARGCTGTAAAG                         GCGATCAAGGGCAAAG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAG
EST: gi|32837007|gb|CD976685.1|CD976685
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|4646789|gb|AI621864.1|AI621864
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|37396054|gb|CF635315.1|CF635315
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|60339425|gb|DN206398.1|DN206398
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|67015610|gb|CO444359.1|CO444359
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|148935311|gb|EC879352.2|EC879352
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|149077884|gb|EE166612.2|EE166612
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|60399037|gb|DN231853.1|DN231853
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|211188435|gb|FL445804.1|FL445804
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|14204226|gb|BG837903.1|BG837903
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|51592884|gb|CV072030.1|CV072030
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
EST: gi|40485969|gb|CK394830.1|CK394830
EST:     GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAG                         GCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG
genomic: GAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTG

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), 49 (downstream exon)
Score: 498

CATTGGTGATGTGGCTACCTTCCCTTTGAAGATGTACAATGAGTTGAGGAGAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTGCCATACTTCTACTCCCGATCATTCGACCTGGCGTGGCAATTCTACGGCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 709

CATTGGTGATGTGGCTACCTTCCCTTTGAAGATGTACAATGAGTTGAGGAGAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTGCCATACTTCTACTCCCGATCATTCGACCTGGCGTGGCAATTCTACGGCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 213

CATTGGTGATGTGGCTACCTTCCCTTTGAAGATGTACAATGAGTTGAGGAGAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTGCCATACTTCTACTCCCGATCATTCGACCTGGCGTGGCAATTCTACGGCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1557

CATTGGTGATGTGGCTACCTTCCCTTTGAAGATGTACAATGAGTTGAGGAGAGTGGAACATGTTGACCATTCTAGAAAGTCTGCAGAGCAGGCTGTAAAGgtgtggctat ... cttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTGCCATACTTCTACTCCCGATCATTCGACCTGGCGTGGCAATTCTACGGCG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atccgtttggtatccaaattggttgcgatggtaatgttatggcctcttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTGCCATACTTCTACTCCCGATCATTCGACCTGGCGTGGCAATTCTACGGCG
                                          cctcttatttc  CT-rich tract
                               taatgttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cccccccccccaaaaaaaaaagtagtgtaattcatttatattgtcatccgtttggtatccaaattggttgcgatggtaatgttatggcctcttatttcagGCGATCAAGGGCAAAGAGTCCGGTGAACCAGTTCCGGAGTATGACTACCTGCCATACTTCTACTCCCGATCATTCGACCTGGCGTGGCAATTCTACGGCG

- - -cccccca
- - - - - -aaaaaaa
- - - - - - - - - - - - - - - ttcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggttgc