Sequence
atgc intronic sequence ATGC exonic sequencegtttgtattcaatgaaggaacacagatctatatactttgatagtggtgtcttgtagatattcatcattatttctctgtttggttatttcacaataacttacatattcctcttgttttgtttgcagGAAGGCACTTCTAATTACTTTAAAGGACTAATGCTCATTCTTTGCTATCTAATAGTTGCAGCAAGTTTCTTTGTACATGTCGATCCTACTTTAGTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0015g01320.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G44910.1 (Glycine max), 3'ss of exon 9
gtttgtattcaatgaaggaacacagatctatatactttgatagtggtgtcttgtagatattcatcattatttctctgtt----tggttatttcacaataacttacatattcctcttgttttg--tttgcagGAAGGCACTTCTAATTACTTTAAAGGACTAATGCTCATTCTTTGCTATCTAATAGTTGCAGCAAGTTTCTTTGTACATGTCGATCCTACTTTAGTAG---
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gtttgtattcaaacataaaaaaaaga---atgaaaattaaaagtatggtattacgaatgttaacaatgacttgattattagtatggtgaagactgaagagacaacac-tgacatttattatgcatttgcagGAAGGAACTGCTAATTACTTCAAAGGACTAATGCTTATTCTTTGCTATCTGATAGTGGCAGCCAGTTTTTATGTACATGTAGATTCCTCTCAATAAGTTA
upper sequence: Vv19s0015g01320.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA18G08030.1 (Glycine max), 3'ss of exon 11
gtttgtattcaat-----gaaggaacacagatctatatactttgatagtggtgtcttg-------tagatatt---catcattatttctctgtttggttatttcacaataactta----catattcctcttgttttg--tttgcagGAAGGCACTTCTAATTACTTTAAAGGACTAATGCTCATTCTTTGCTATCTAATAGTTGCAGCAAGTTTCTTTGTACATGTCGATCCTACTTTAGTAG---
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gtttgtattcaatcataaaaaaaagaataaaaattaaaagtatggtattaggaacctaaaacacatagatagcacatgttaacaatgccttgattattagtatgataaaaagataacattgtgacatatttattatgaatttgcagGAAGGAACTGCTAATTACTTCAAAGGGCTAATGCTTATTCTTTGCTATCTGATAGTGGCAGCCAGTTTTTATGTACATGTAGATTCCTCTCAATAAGTTA
upper sequence: Vv19s0015g01320.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G44920.1 (Glycine max), 3'ss of exon 9
gtttgtattcaatga-aggaacacagatctatatactttgatagtggtgtcttgtagatattcatcattatttctctgtttggttatttcacaataacttacatattcctcttgttttgtttgcagGAAGGCACTTCTAATTACTTTAAAGGACTAATGCTCATTCTTTGCTATCTAATAGTTGCAGCAAGTTTCTTTGTACATGTCGATCCTACTTTAGTAG
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gtttgtattcaaagataaaagaatgaaaatgaaaattatgctattaggaaccca-aaacatgtag-acaatgacatatgttaacattgtgacattaatttat-tatgc----------atttgcagGAAGGAACTGCCAATTACTTCAAAGGACTACTGCTTATTCTTTGCTATCTGATAGTGGCTGCCAGTTTTTATGTACATTTAGATTCCTCTC-AATAA
upper sequence: Vv19s0015g01320.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G55730.1 (Arabidopsis thaliana), 3'ss of exon 11
gtttgtattcaatgaaggaacacagatctatatactttgatagtggtgtcttgtagatattcatcattatttctctgtttggttatttcacaataacttacatattcctcttgttttgtttgcagGAAGGCACTTCTAATTACTTTAAAGGACTAATGCTCATTCTTTGCTATCTAATAGTTGCAGCAAGTTTCTTTGTACATGTCGATCCTACTTTAGTAG
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-----------------------------gtaaatcttgaagctaattacgaaaccaatctcgagtatatctctctcttcaaagttgtta-aatgtctt---tgtgtgtggtgtttt-tatgcagGAAGGAACATCGAATTACTTCAAAGGATTGATGCTCATTCTTTGCTATTTGATAGTCGCCGCTAGTTTCTTTGTACACGAAGATCCTCATCAAG---
upper sequence: Vv19s0015g01320.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G55720.1 (Arabidopsis thaliana), 3'ss of exon 10
gtttgtattcaatgaaggaacacagatctatat-actttgatagtggtgtcttgtagatattcatcattatttctctgtttggttatttcacaataacttacatattcctcttgttttgtttgcagGAAGGCACTTCTAATTACTTTAAAGGACTAATGCTCATTCTTTGCTATCTAATAGTTGCAGCAAGTTTCTTTGTACATGTCGATCCTACTTTAGTAG
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gttaatcttgaagctaattatg-aaaccaatgttgattttatcttcatgatcgctaatcacgaaaccatgcattcttgagt--ttttcttgcatgaagctgtgt-------ttgttgtaat-gcagGAAGGGACATCGAATTACTTCAAAAGATTGATGCTCATTCTTTGCTATTTGATAGTCGCTGCTAGTTTCTTTGTACACGAAGATCCTCATCAAG---
upper sequence: Vv19s0015g01320.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT3G13320.1 (Arabidopsis thaliana), 3'ss of exon 11
gtttgtattcaatgaaggaacacagatctatatactttgatagtggtgtcttgtagatattcatcattatttct--ctgtttggttatttcacaataacttacatattcctcttgttttgtttgcagGAAGGCACTTCTAATTACTTTAAAGGACTAATGCTCATTCTTTGCTATCTAATAGTTGCAGCAAGTTTCTTTGTACATGTCGATCCTACTTTAGTAG
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---------------------------------------gtggctaaaatccttaagtctaaatcactgtcgataatgaaaagataattccaaaatttttaactgatgatctctgttatgtacgcagGAAGGGTCATCGAATTACTTCAAAGGATTGATGCTGATTCTTTGTTATTTGATAGTAGCTGCCAGTTTCTTTGTACACGAAGATCCTCACCAAG--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctctgtttggttatttcacaataacttacatattcctcttgttttgtttgcagGAAGGCACTTCTAATTACTTTAAAGGACTAATGCTCATTCTTTGCTATCTAATAGTTGCAGCAAGTTTCTTTGTACATGTCGATCCTACTTTAGTAG
aacttac putative branch site (score: 2)
ttcctcttgttttgtt putative PPT
aataacttacatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtattcaatgaaggaacacagatctatatactttgatagtggtgtcttgtagatattcatcattatttctctgtttggttatttcacaataacttacatattcctcttgttttgtttgcagGAAGGCACTTCTAATTACTTTAAAGGACTAATGCTCATTCTTTGCTATCTAATAGTTGCAGCAAGTTTCTTTGTACATGTCGATCCTACTTTAGTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG