Sequence
atgc intronic sequence ATGC exonic sequence...tgtttacttgtgcattgcatttcatctactagatgatgctttgataagtcttttaaaaaaaggaatttgtttttgatgattaatctggctgattatgcagATTTTCTTCAATCCTGAGATCTACAGCAGCGATTTTGCAACCCCTTTACCAGCTGTAATAGACAAGTGTATTCAGTCTGCACCAATTGACACAAGAAGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G136662_T01 (Zea mays), 3'ss of exon 5
-tgtttacttgtgcattgcatttcatctactagatgatgctttgataagtcttttaaaaaaaggaatttgtttttgatgattaatc--tggctgatta-tgcagATTTTCTTCAATCCTGAGATCTACAGCAGCGATTTTGCAACCCCTTTACCAGCTGTAATAGACAAGTGTATTCAGTCTGCACCAATTGACACAAGAAGGG
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taacttgcttgggactaaaagactatgt--tgatgtacagttggtcatgttttttaggtca--gaattaggtgtgcatctctaatcatttaccaacaaatgcagATCTTCTTCAATCCTGAGATTTACTCTGCCGATTTCTCCACTCCTTTGCCCGAGTTGATTGACAACTGTGTTCAGTCTGCACCAATTGACACAAGGAGAG
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G305332_T01 (Zea mays), 3'ss of exon 1
tgtttacttgtgcattgcatttcatctactagatgatgctttgataagtcttttaaaaaaa--ggaatttgtttttgatgattaat---ctggctgattatgcagATTTTCTTCAATCCTGAGATCTACAGCAGCGATTTTGCAACCCCTTTACCAGCTGTAATAGACAAGTGTATTCAGTCTGCACCAATTGACACAAGAAGGG
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--tttgttagaataa-acttttaacttgttttcagttggtc--atgattttttttaagaagtcagaatttggtgtgcgtctctaatcatctagcaacaaatgcagATCTTCTTCAATCCTGAGATTTACTCTGCCGACTTCTCCACTCCTTTACCTGAGTTGATTGATAACTGTGTTCAGTCTGCACCAATTGACACAAGGAGAG
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G30630.1 (Glycine max), 3'ss of exon 5
tgtttacttgtgcattgcatttc---atctactagatgatgctttgataagtcttttaaaaaaaggaatttgtttttgatgattaatctggctgattatgcagATTTTCTTCAATCCTGAGATCTACAGCAGCGATTTTGCAACCCCTTTACCAGCTGTAATAGACAAGTGTATTCAGTCTGCACCAATTGACACAAGAAGGG
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-gtctaattgtggagctaatccatgggttcagtttgggtcataatgttaacaggatcagtcatattaacatatctgt-atgctttcccta-tgatttctgcagATTTTCTTTAATCCTGAGATATATGGCAGTGACTTTACCACCCCTTTGCCAGTTGTAATAGACAAGTGCATTCAGTCTGCGCCAATTGACACAAGGAGAT
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G13810.1 (Glycine max), 3'ss of exon 5
tgtttacttgtgcattgcatttcatctactagatgatgctttgataagtcttttaaaaaaag-----gaatt--tgtttttgatgattaatctggctgattatgcagATTTTCTTCAATCCTGAGATCTACAGCAGCGATTTTGCAACCCCTTTACCAGCTGTAATAGACAAGTGTATTCAGTCTGCACCAATTGACACAAGAAGGG
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------gtctaatagtggagctaatccatgggttca-gtttgggtcattatattaacaggacttgtcaaattaacatatatgtgtgttttccccatgatttctgcagATTTTCTTTAATCCCGAGATATATGGCAGTGACTTTACCACCCCTTTGCCAGTTGTAATAGACAAGTGTATTCAGTCTGCGCCAATTGACACAAGGAGAT
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G13780.1 (Glycine max), 3'ss of exon 5
tgtttacttgtgcattgcatttcatctactagatgatgctttgataagtcttttaaaaaaaggaattt---gtttttgatgattaatctggctgattatgcagATTTTCTTCAATCCTGAGATCTACAGCAGCGATTTTGCAACCCCTTTACCAGCTGTAATAGACAAGTGTATTCAGTCTGCACCAATTGACACAAGAAGGG
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-gtgtaattcctgagctaatctataggttcagttggggtcattata--tcaataggaccagtcaatttaacatatctgtatgttttccctatgatttctgcagATTTTCTTTAATCCTGAGATATATAGTAGTGACTTTACTACCCCTTTGCCAGTTGTAATAGACAAATGCATTCAGTCTGCGCCAATTGACACAAGGAGAT
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G13180.1 (Arabidopsis thaliana), 3'ss of exon 5
-----tgtttacttgtgcattgcatttcatctactagatgatgctttgataagtcttttaaaaaaaggaatttgtttttgatgattaatctggctgattatgcagATTTTCTTCAATCCTGAGATCTACAGCAGCGATTTTGCAACCCCTTTACCAGCTGTAATAGACAAGTGTATTCAGTCTGCACCAATTGACACAAGAAGGG
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caagagagtaactggaaagtggaacataatttcctttattgttcttgcgtttttgttctgctattaccgatgagtaat-gttga--gattttgtgtgtta--cagGTGTTCTTTAATCCAGAGATATACAGCAATGACTTCACAACTACTTTACCAGCTGTGATAGACAAATGTATTCAGTCTGCACCAATTGACACACGAAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtcttttaaaaaaaggaatttgtttttgatgattaatctggctgattatgcagATTTTCTTCAATCCTGAGATCTACAGCAGCGATTTTGCAACCCCTTTACCAGCTGTAATAGACAAGTGTATTCAGTCTGCACCAATTGACACAAGAAGGG
ttttaaaaaaaggaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttacttgtgcattgcatttcatctactagatgatgctttgataagtcttttaaaaaaaggaatttgtttttgatgattaatctggctgattatgcagATTTTCTTCAATCCTGAGATCTACAGCAGCGATTTTGCAACCCCTTTACCAGCTGTAATAGACAAGTGTATTCAGTCTGCACCAATTGACACAAGAAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - cttgtgc
- - - - - - - - gcatttc
- - - - - - - - - - - - - - - - - - tgctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa