Sequence
atgc intronic sequence ATGC exonic sequence...ctctgtcactcatttttttgagacagaatattcctcacttgttaacttcctgccttctacgttatgaatcttgttactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g01490.1 (Oryza sativa), 3'ss of exon 7
ctctgtcactcatttttttgagacagaatattcctcacttgttaacttcctgccttctacgttatgaatcttgttactgaacttctgaa-tatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG
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-ctggaaatgcaagattgtgtgtaaccgctaacctgttgcttcatctttttttactctgctgtccactgttctgaactaatattttgaaatgcgataacagAGGACAGAGATTTATGAATATGCGAAGGTGCTTGGTAATTCTCAATATATCCTGCTACCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGCGG
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G163277_T01 (Zea mays), 3'ss of exon 7
ctctgtcactcatttttttgaga-cagaatattcctcacttgttaactt-cctgccttctac-gttatgaatcttgtt-actgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG
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----aacaattaatatacggatatcaggattacgcgtagttatttattagcttattttctgtagctgttcactgtctggactaatgtttttaaattgcaaacagAGGACAGAGGTTTATGAATACGCGAAGGTGCTTGGTAATTCTCAGTATATCCTACTACCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGTTG
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G429241_T01 (Zea mays), 3'ss of exon 7
ctctgtcac-tcatttttttgagacagaatattcctcacttgttaacttcctgccttctacgttatgaatcttgttactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG
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tacagatacattggcagcactatgcatagttttttgttattttatttctgttgctattcactgtctggactctgg-actaatatcttcaaaatgcaaacagAGGACAGAGGTTTATGAATATGCGAAGGTGCTTGGTAATTCTCAATATATCCTACTATCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGTGG
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G442742_T01 (Zea mays), 3'ss of exon 3
ctctgtcactcatttttttgagacagaatattcctcacttgttaacttcctgccttctacgttatgaatcttgttactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG----------------------------
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-----------------------------------------------------------------ggactctgg-actaatatcttcaaaatgcaaatagaggacagaggtttatgaatatgcgaaggtgcttggtaattctcaatatatcctactatcctttcagCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGCTTCTTTGAG
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G107218_T02 (Zea mays), 3'ss of exon 2
ctctgtcactcatttttttgagacagaatattcctcacttgttaacttcctgccttctacgttatgaatcttgttactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG----------------------------
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-----------------------------------------------------------------ggactctgg-actaatatcttcaaaatgcaaacagaggacagaggttaatgaatatgcgaaggtgcttggtaattctcaatatatcctactatcctttcagCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGATTCTTTGAG
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G107218_T01 (Zea mays), 3'ss of exon 2
ctctgtcac-tcatttttttgagacagaatattcctcacttgttaacttcctgccttctacgttatgaatcttgttactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG
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tacagttacattggcagcactatgcatagttttttgttattttatttctgttgctattcactgtctggactctgg-actaatatcttcaaaatgcaaacagAGGACAGAGGTTAATGAATATGCGAAGGTGCTTGGTAATTCTCAATATATCCTACTATCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGTGG
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G480185_T01 (Zea mays), 3'ss of exon 2
ctctgtcac-tcatttttttgagacagaatattcctcacttgttaacttcctgccttctacgttatgaatcttgttactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG
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tatagatacattggcagcactatgcatagttttttgttattttatttctgttgctattcactgtctggactctgg-actaatatcttcaaaatgcaaacagAGGATAGAGGTTTACGAATATGCGAAGGTGCTTGGTAATTCTCAATATATCCTACTATCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGTGG
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G03590.1 (Glycine max), 3'ss of exon 12
--ctctgtcactcatttttttgagacagaatattcctcacttgttaacttcctgccttctacgttatgaatcttgttactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG
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acttgtgccacctcaggatctgttgctttcttaaaagaacatgttcaaatatgattctgtatgttgctt-tcatatt-cttatctgattggtacttggacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA01G41790.1 (Glycine max), 3'ss of exon 11
ctctgtcactcatttttttgagacagaatattcctcacttgttaacttcctgccttctacgttatgaatcttgt---tactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG
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---acttgtgcaacctcaggatctgttgctttcttaaaagaacatattcaaatatgattcagtatgttgctttcatattcttacctgattggtacttggacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G03580.1 (Glycine max), 3'ss of exon 12
ctctgtcactcatttttttgagacagaatattcctcacttgttaacttcctgccttctacgtt------atgaatcttgttactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG
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------ctgttgctttctaaacacaacatgttcaatatgattcagcatgttgcatgatgtggttattgaataactcgaacatcttacctgattggtatttggacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCGTATAAGCTTATATATGCATTTTTGCTAGCTG
upper sequence: Vv15s0021g02730.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA01G41800.1 (Glycine max), 3'ss of exon 9
ctctgtcactcatttttttgagacagaatattcctca-cttgtta-acttcctgccttctacgtta-tgaatcttgttactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG
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-tctgttgctttctaaaaacatgttcaatatgattcagcatgttgcatgatgtgtttattaaataactcaaacatat--cttacctgattggtatttcgacagAGGACCGAGTTATATGAATATTCAAAGGTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttcctgccttctacgttatgaatcttgttactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG
ttatgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctctgtcactcatttttttgagacagaatattcctcacttgttaacttcctgccttctacgttatgaatcttgttactgaacttctgaatatctggacagAGGACAGAATTCTATGAATATTCAAAGGTGCTTGGCAATTCTCAGTTTATCCTACTACCTTTTCAGCCTTATAAGATTATTTATGCCCACATGCTGGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - cactcat
- - - - - - - - - - agacaga
- - - - - - - - - - - - - - - -tcctcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttctga