Sequence
atgc intronic sequence ATGC exonic sequence...ggagaaaaagaatggaaatcttttgaactctgtctcttttatctttttatattttaatttataggatttgatcctacaaaaatgtgttaataaaatgcagGATGTCTACTTTGATGATGAATCTGCTGAAGTAGTGATCTCATCCCTGAGACTTGGTGATGACCAAGGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02770.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA11G20500.1 (Glycine max), 3'ss of exon 17
---ggagaaaaagaatggaaatcttttgaactctgtctcttttatctttttatattttaatttataggatttgatcctacaaaaatgtgttaataaaatgcagGATGTCTACTTTGATGATGAATCTGCTGAAGTAGTGATCTCATCCCTGAGACTTGGTGATGACCAAGGGAG
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taattcccacatgatctagaataacagggcctataatatagtaatctt---gcactctttgttaactaatttgacagtaaacttttctgtttgtcaaatgcagGATGTCTACTTTGACGATGATTCTGCTGAAGTAGTCATATCTTCCCTGAGACTTGGTGATGATCAAGGGAG
upper sequence: Vv06s0004g02770.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA12G08100.1 (Glycine max), 3'ss of exon 17
------ggagaaaaagaatggaaatcttttgaactctgtc-tcttttatctttttatattttaatttataggatttgatcctacaaaaatgtgttaataaaatgcagGATGTCTACTTTGATGATGAATCTGCTGAAGTAGTGATCTCATCCCTGAGACTTGGTGATGACCAAGGGAG
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ttcccacatgatctagaataacagtgcccttaatatagtaatcttgcactctttgttaaactaaattgttag--ttaacttttc-----tgtttttgtcaaatgcagGATGTCTACTTTGACGATGATTCTGCTGAAGTAGTCATATCATCCCTTAGACTTGGTGATGATCAAGGGAG
upper sequence: Vv06s0004g02770.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA13G40050.1 (Glycine max), 3'ss of exon 17
----------------------------ggagaaaaagaatggaa---atcttttgaactctgtctcttttatctttttatattttaatttataggatttgatcctacaaaaatgtgtta-ataaaatgcagGATGTCTACTTTGATGATGAATCTGCTGAAGTAGTGATCTCATCCCTGAGACTTGGTGATGACCAAGGGAG
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gtagtagttttgtttactcttggtaactgttgtaatttaatgtgatttatgtcttgtccatcaaccaaaatatctagtaatattttactttcttaa--ctaatagcaactttgtctgttgtatgatctgcagGATGTCTACTTTGATGATGACTCTGCTCAAGTAGTCATATCATCCCTCAGACTCAGTGACGATCAAGGGAG
upper sequence: Vv06s0004g02770.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA12G29710.2 (Glycine max), 3'ss of exon 17
----------------------------------------------------------------------------------------ggagaaaaagaatggaaatcttttgaactctgtctcttttatctttttatatttta-atttataggatttgatcctacaaaaa-----tgtgtta-ataaaatgcagGATGTCTACTTTGATGATGAATCTGCTGAAGTAGTGATCTCATCCCTGAGACTTGGTGATGACCAAGGGAG
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gtagtagttttgtttactcttggtaactgttgtaatttaatgtgattgatcttggggattttgagaatcaatctagctcttatgtcactgagtgatatagtcaatttgtgttgtgcatcaaccaaaatatctagtgatcttttttacttttactttcttaactaatggcaactttatctgttgtatgatttgcagGATGTCTACTTTGATAATGACTCTGCACAAGTAGTCATATCATCCCTCAGACTCAGTGACGATCAAGGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatattttaatttataggatttgatcctacaaaaatgtgttaataaaatgcagGATGTCTACTTTGATGATGAATCTGCTGAAGTAGTGATCTCATCCCTGAGACTTGGTGATGACCAAGGGAG
tgttaat putative branch site (score: 3)
attttaatttatagga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggagaaaaagaatggaaatcttttgaactctgtctcttttatctttttatattttaatttataggatttgatcctacaaaaatgtgttaataaaatgcagGATGTCTACTTTGATGATGAATCTGCTGAAGTAGTGATCTCATCCCTGAGACTTGGTGATGACCAAGGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - -aaaagaa
- - - - - - -ggaaatc
- - - - - - - - - - - - - - - tgtctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaaaaa