Sequence
atgc intronic sequence ATGC exonic sequence...tcctttgaagcttcatctgcattacattatattagaacactagatggcgattgattcttcagcttatgtgaaattttccttggctatattccttgaacagGTGGATGACAAACTCTACATATATTTGGAATATGTATCTGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGCTTGGTGAAATAGCTATTCGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os04g47240.2 (Oryza sativa), 3'ss of exon 5
tcctttgaagcttcat--ctgcatt--acattatattagaacactagatggcgattgattcttcagcttatgtgaaattttccttggc-tatattccttga-acagGTGGATGACAAACTCTACATATATTTGGAATATGTATCTGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGCTTGGTGAAATAGCTATTCGTA
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------gaagttgcatgatagcatctaggatttcattaatgagttatttatgtaccacttttgattttcttttttggcttcacttattatttgtgccccaatacagGTTGATGATAAGCTTTATATATACTTGGAGTATGTATCTGGTGGATCTATCCATAAACTTCTACAAGAGTATGGACAGCTTGGTGAACAAGCAATACGCA
upper sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G175504_T01 (Zea mays), 3'ss of exon 4
tcctttgaagcttcatctgc--attacattatattagaacactagatggcgattgattcttcagcttatg--tgaaattttccttggctatattccttgaacagGTGGATGACAAACTCTACATATATTTGGAATATGTATCTGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGCTTGGTGAAATAGCTATTCGTA
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----gagagttcacaacagcttgtcacatatcattaatagggttatggatgcattattttcatttttaggcatgaacttatacattatgtttgcccaaaattagGTTGAAGATAAACTTTACATATATTTGGAATATGTTTCTGGTGGATCCATACATAAACTTCTACAAGAATATGGACAGCTTGGTGAACCAGCAATACGCA
upper sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G093316_T01 (Zea mays), 3'ss of exon 5
tcctttgaagcttcat-ctgcattacattatattagaacactagatggcgat-----tgattcttcagcttatgtgaaattttccttggctatattccttgaacagGTGGATGACAAACTCTACATATATTTGGAATATGTATCTGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGCTTGGTGAAATAGCTATTCGTA
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-----tagaattgcattcttttttggacggaaggagtaca-tagttatttttcctcatgcatcttgtgattattcgaaatacatctccatattatattgaaaacagGTTGATGATAAGCTTTACATATACCTGGAGTATGTTTCTGGTGGATCTATACATAAGCTTCTCCAAGAGTATGGTCAGTTTGGTGAACAGGCCATTCGCA
upper sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AC209208.3_FGT001 (Zea mays), 3'ss of exon 4
tcctttgaagcttcatctgcattacattatattagaacactagatggcgat-----tgattcttcagcttatgtgaaattttccttggctatattccttgaa-cagGTGGATGACAAACTCTACATATATTTGGAATATGTATCTGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGCTTGGTGAAATAGCTATTCGTA
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----tagaatcacattcttttctggatggagggagtaca-tagttacttttccccatgcatcttgtgattcttctaaatgcatctcca-tatattatacaaaatagGTTGATGATAAGCTTTACATATACCTGGAGTATGTTTCTGGTGGATCTATACATAAGCTTCTCCAAGAGTATGGACAGTTTGGTGAACAAGCCATTTGCA
upper sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G42960.1 (Glycine max), 3'ss of exon 4
tcctttgaagcttcatctgcattacattatattagaacactagatggcga--ttgattcttcagcttatgtgaaattttccttggctatattccttgaacagGTGGATGACAAACTCTACATATATTTGGAATATGTATCTGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGCTTGGTGAAATAGCTATTCGTA
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--ttttagaaatttgacaatctactaaaatactaaatatttaagagaagatgttgatacttaagattgttttaagtgatttatggctctttataataaacagGTAGATGACAAACTTTATATATACTTGGAGTATGTCTCTGGTGGGTCAATCTATAAGTTGCTTCAACAGTATGGCCAGCTTAGTGAAATTGTTATTCGTA
upper sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G02520.1 (Glycine max), 3'ss of exon 7
tcctttgaagcttcatctgcattacattatattagaacactagatggcga--ttgattcttcagcttatgtgaaattttccttggctatattccttgaacagGTGGATGACAAACTCTACATATATTTGGAATATGTATCTGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGCTTGGTGAAATAGCTATTCGTA
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--ttttagaaattcgacaatctactaaaatactaaatatttaagagaagatgttgatacttcagattgtttttagtgattcatggttctttataataaacagGTAGATGATAAACTTTATATATACTTGGAGTATGTCTCTGGTGGGTCAATCTATAAGTTGCTTCAACAGTATGGCCAGCTTAGTGAAATTGTTATTCGTA
upper sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G63700.1 (Arabidopsis thaliana), 3'ss of exon 4
------tcctttgaagcttcatctgcattacattatattagaacactagatggcgattgattcttcagcttatg----tgaaattttccttggctatattccttgaa--cagGTGGATGACAAACTCTACATATATTTGGAATATGTATCTGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGCTTGGTGAAATAGCTATTCGTA
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gtaagttttacagatatttcttggacatttctgttctctgatactatcaactgtttcagctcaaccaagtcatgcacatgactagattctttactttcccctcccaattcagGTCGATGACAAGCTGTATATATATCTGGAGTATGTCTCCGGTGGTTCGATCTATAAACTTCTTCAAGAGTATGGACAATTTGGTGAGAATGCCATTCGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggcgattgattcttcagcttatgtgaaattttccttggctatattccttgaacagGTGGATGACAAACTCTACATATATTTGGAATATGTATCTGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGCTTGGTGAAATAGCTATTCGTA
gattgat putative branch site (score: 4)
tattcctt putative PPT
ttatgtgaaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcctttgaagcttcatctgcattacattatattagaacactagatggcgattgattcttcagcttatgtgaaattttccttggctatattccttgaacagGTGGATGACAAACTCTACATATATTTGGAATATGTATCTGGTGGTTCCATATATAAACTTCTTCAAGAGTATGGCCAGCTTGGTGAAATAGCTATTCGTA
- - -tgaagct
- - - - - - -catctgc
- - - - - - - - - - - - - - - - -agaacac
- - - - - - - - - - - - - - - - - - - - tagatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcttatg