Sequence
atgc intronic sequence ATGC exonic sequence...agggcttaataattccatattttgatttccaatttttgtttagactgtttaatatattcaataacagagtatgctttcatcttgtcctctatatgcatagGTGGGATCAAGATACCTGGACCATTTGATTGTGGAAAGGAAATATGCTGAAGCTGCATCTTTGTGTCCTAAATTGTTGCGTGGATCTGCTTCAGCATGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g00940.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os04g11880.1 (Oryza sativa), 3'ss of exon 7
agggcttaataattccatattttgatttccaatttttgtttagactgttta-ata-tattcaataacagagt--atgctttcatcttgtcctctatatgcatagGTGGGATCAAGATACCTGGACCATTTGATTGTGGAAAGGAAATATGCTGAAGCTGCATCTTTGTGTCCTAAATTGTTGCGTGGATCTGCTTCAGCATGGG
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--agcccatttttttaggaaggacgacctcagctattaagaaatctaaccacataatagctaggaacattattgaaattttgttcatgccatct-tatgt-cagGTGGGTTCGAGATACCTTGATCATTTGATAATTGAAAGAAAATATGCTGAAGCTGCACGCCTCTGTCCAAAATTGTTGCGAGGATCTCCTTCAGCATGGG
upper sequence: Vv06s0061g00940.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G040247_T01 (Zea mays), 3'ss of exon 7
agggcttaataattccatattttgatttccaatttttgtttagac-tgtttaatatattcaataacagagtatgctttcatcttgtcctctatatg----catagGTGGGATCAAGATACCTGGACCATTTGATTGTGGAAAGGAAATATGCTGAAGCTGCATCTTTGTGTCCTAAATTGTTGCGTGGATCTGCTTCAGCATGGG
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-----tttgagcccatctatgacaaggacttgtccttacaaaagcacacctaattacattagaaatactttatgcattaaagtcggttcattcatggtaatccagGTGGGCTCAAGATACCTTGATCACTTGATAATTGAAAGAAAATATGCTGAAGCTGCTCAACGCTGCCCAAAGTTGTTGCGAGGATCCCCTTCAGCATGGG
upper sequence: Vv06s0061g00940.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G08840.1 (Glycine max), 3'ss of exon 7
agggcttaataattccatattttgatttccaatttttgtttagactgtttaatatattcaataacagagtatgctttcatcttgtcctctatatgcatagGTGGGATCAAGATACCTGGACCATTTGATTGTGGAAAGGAAATATGCTGAAGCTGCATCTTTGTGTCCTAAATTGTTGCGTGGATCTGCTTCAGCATGGG
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aagatgtattttgtgtgtgtatatatgatttgtttccttctaggtgaatttttccatttgagtaatgagaagtttttcaatttgcccactatctttgcagGTGGGATCTAGGTACCTTGATCATTTGATTGTGGAAAGAAAATACAGGGAAGCAGCATCTTTGTGTCCCAAGTTGCTTCGAGGATCAGCTTCAGCATGGG
upper sequence: Vv06s0061g00940.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G19660.2 (Glycine max), 3'ss of exon 7
agggcttaataattccatattttgatttccaatttttgtttagactgtttaatatattcaataacagagtatgctttcatcttgtcctctatatgcatagGTGGGATCAAGATACCTGGACCATTTGATTGTGGAAAGGAAATATGCTGAAGCTGCATCTTTGTGTCCTAAATTGTTGCGTGGATCTGCTTCAGCATGGG
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aagatgtattttgtgtgtatatatatgctttgtttccttctaggttaatttgtccatttgagtaatgagaagtttttcatttttcccactatctttgcagGTGGGATCTAGGTACCTTGATCATCTGATTGTGGAAAGAAAATACAGTGAAGCAGCATCTTTGTGTCCCAAGTTGCTTCGAGGATCAGCTTCAGCATGGG
upper sequence: Vv06s0061g00940.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G08190.1 (Arabidopsis thaliana), 3'ss of exon 7
----agggcttaataattccatattttgatttccaatttttgtttagactgtttaatatattcaataacagagtatgctttcatcttgtcctctatatgcatagGTGGGATCAAGATACCTGGACCATTTGATTGTGGAAAGGAAATATGCTGAAGCTGCATCTTTGTGTCCTAAATTGTTGCGTGGATCTGCTTCAGCATGGG
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ttcataagcctggaaaatct-tgttcgagaaaccaactgttaagtt--ctcttttctttattgtataaacgattttcaattc-taacacaaacgagttatctagGTGGGAGCTGGGTATCTTGATCATTTGATTGTGGAAAGAAAATATGCTGAAGCGGCATCTTTATGCCCCAAATTGTTACGAGGATCTGCTTCAGCCTGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttaatatattcaataacagagtatgctttcatcttgtcctctatatgcatagGTGGGATCAAGATACCTGGACCATTTGATTGTGGAAAGGAAATATGCTGAAGCTGCATCTTTGTGTCCTAAATTGTTGCGTGGATCTGCTTCAGCATGGG
caataac putative branch site (score: 2)
tcctctat putative PPT
aatatattcaataaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agggcttaataattccatattttgatttccaatttttgtttagactgtttaatatattcaataacagagtatgctttcatcttgtcctctatatgcatagGTGGGATCAAGATACCTGGACCATTTGATTGTGGAAAGGAAATATGCTGAAGCTGCATCTTTGTGTCCTAAATTGTTGCGTGGATCTGCTTCAGCATGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - caataac