Sequence
atgc intronic sequence ATGC exonic sequencegtaatcaaaacaccactatatcatcccctttcctctctttcagttccataatttcccatttcctttgatgaaaaaaattgttatacatttgtagCACAAGGAAAGAGAATTTCTTTTGAAGTTCTCTGCTATGGAGATTTACAATGAATCTGTCAGAGACCTTCTCAGCTCAGATACTGCTCCGCTTCGACTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G37340.1 (Glycine max), 3'ss of exon 3
gtaatcaaaacaccactatatcatcccctttcctctctttcagttccataatttcccatttcctttgatgaaaaaaattgttatacatttgtagCACAAGGAAAGAGAATTTCTTTTGAAGTTCTCTGCTATGGAGATTTACAATGAATCTGTCAGAGACCTTCTCAGCTCAGATACTGCTCCGCTTCGACTTC
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gtaggtgaaatacgaacatgtcaatacattaccttgtctt---tctcaaaaacctttttttgatttggtt----------ttaccttttcatagCACAAGGAAAGAGAATTCATGTTGAAGTTTTCGGCAATTGAGATTTATAATGAATCTGTCAGGGACCTCCTTAGTCCAGACTGTACTCCTCTCAGACTTC
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G24250.1 (Glycine max), 3'ss of exon 3
gtaatcaaaacaccactatatcatcccctttcctctctttcagttccataatttcccatttcctttgatgaaaaaaattgttatacatttgtagCACAAGGAAAGAGAATTTCTTTTGAAGTTCTCTGCTATGGAGATTTACAATGAATCTGTCAGAGACCTTCTCAGCTCAGATACTGCTCCGCTTCGACTTC
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gtaaatgaaatctgaactcatcaatgaatcactgcatt----gctttgttatt-ctcaaatccttacattggttatatttttattt-ttcacagCACACGGAAAGGGAATTTGTTTTGAAGTTTTCAGCATTGGAGATCTATAATGAATCTGTCAGGGACCTCCTTAGTGTGGACAGTACACCTCTTAGACTTC
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G07950.1 (Glycine max), 3'ss of exon 3
gtaatcaaaacaccactatatcatcccctttcctctctttcagttccataatttcccatttcctttgatgaaaaaaattgttatacatttgtagCACAAGGAAAGAGAATTTCTTTTGAAGTTCTCTGCTATGGAGATTTACAATGAATCTGTCAGAGACCTTCTCAGCTCAGATACTGCTCCGCTTCGACTTC
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gtagatgaaatatgaacatgtcaatgcattaccttgtcttt--ctcaaaaaccatttttttgatttggtta----------tacctctttatagCACACGGAAAGAGAATTCATGTTGAAGTTTTCGGCAATTGAGATTTATAATGAATCTGTAAGGGACCTCCTTAGTCCAGACTGTACCCCTCTCAGACTTC
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G05650.1 (Glycine max), 3'ss of exon 3
gtaatcaaaacaccactatatcatcccctttcctctctttcagttccataatttcccatttcctttgatgaaaaaaattgttatacatttgtagCACAAGGAAAGAGAATTTCTTTTGAAGTTCTCTGCTATGGAGATTTACAATGAATCTGTCAGAGACCTTCTCAGCTCAGATACTGCTCCGCTTCGACTTC
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gtaaatgaaatctgaactcatcaatgaatcactgcatt----gctttgtcattctcaaaatccttatatcgattatattttcactt-ttcacagCGCACAGAAAGGGAATTTGTTTTGAAGTTTTCAGCATTGGAGATCTATAATGAATCTGTCAGGGACCTCCTTAGTGTTGACAGTACACCTCTCAGACTTC
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G66310.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaatcaaaacaccactatatcatcccctttcctctctttcagttccataatttcccatttcctttgatgaaaaaaattgttatacatttgtagCACAAGGAAAGAGAATTTCTTTTGAAGTTCTCTGCTATGGAGATTTACAATGAATCTGTCAGAGACCTTCTCAGCTCAGATACTGCTCCGCTTCGACTTC
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-----------gtaaagaaagcaaacattatccttatatcttactactttacttccgagcccatt--atgtagttgtgtatttgctttctgcagCACAAGGAAAGAGAATTCATTCTTAAGTTCTCTGCTATGGAGATCTACAATGAGTCTGTAAGAGATCTCTTAAGTACAGATACTAGTCCACTCAGACTTT
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G51150.2 (Arabidopsis thaliana), 3'ss of exon 5
---------gtaatcaaaacaccactata-tcatcccctttcctctctttcagttccataatttcccatttcctttgatgaaaaaaattgttatacatttgtagCACAAGGAAAGAGAATTTCTTTTGAAGTTCTCTGCTATGGAGATTTACAATGAATCTGTCAGAGACCTTCTCAGCTCAGATACTGCTCCGCTTCGACTTC
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gtaaagttaacaatatcagagtcttcatagtaatcttaccgcattatttccaattcattcagtaactgtcgcctttta---aaaaaattatttgttttttgcagCACAATGAAAGAGAATTCATTCTGAAGTTCTCAGCCATGGAGATCTATAATGAGTCTGTAAGAGACCTCTTGAGTACAGACATTAGTCCACTCAGAGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagttccataatttcccatttcctttgatgaaaaaaattgttatacatttgtagCACAAGGAAAGAGAATTTCTTTTGAAGTTCTCTGCTATGGAGATTTACAATGAATCTGTCAGAGACCTTCTCAGCTCAGATACTGCTCCGCTTCGACTTC
ctttgat putative branch site (score: 5)
tttgatgaaaaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcaaaacaccactatatcatcccctttcctctctttcagttccataatttcccatttcctttgatgaaaaaaattgttatacatttgtagCACAAGGAAAGAGAATTTCTTTTGAAGTTCTCTGCTATGGAGATTTACAATGAATCTGTCAGAGACCTTCTCAGCTCAGATACTGCTCCGCTTCGACTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA