Sequence
atgc intronic sequence ATGC exonic sequence...ccttgaatatgttaatttcttcatcttttgtcgctggagttaaaaattgattgagtgtttacatgaatagtcagtgataatcaaagtttatgtgttgcagGTTGCTCGCAGTGGTCACACTGTGGTCAGAGCAAGCTCTGTCTTAATCCTATTTGGGGGTGAAGATTCTAAAAGAAGGAAACTCAATGATCTACATATGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G02680.1 (Glycine max), 3'ss of exon 6
ccttgaatatgttaatttct-tcatcttttgtcgctggagttaaaaattgattgagtgtttacatgaa--tagtcagtgataatcaaag--tttatgtgttgcagGTTGCTCGCAGTGGTCACACTGTGGTCAGAGCAAGCTCTGTCTTAATCCTATTTGGGGGTGAAGATTCTAAAAGAAGGAAACTCAATGATCTACATATGT
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-----cctttgttttcttcaatcaaaatctctgtatggactttgacaccttgagatttatatcatagacctaggcagtactgaacaaagggtttgttcctggcagGTTGCTCGCAGTGGTCATAGTGTTGTTAGAGCGAGCTCTGTTTTAATATTGTTTGGTGGTGAGGATGCAAAAAGGAGGAAATTGAATGATCTACATATGT
upper sequence: Vv05s0020g01740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA15G10310.1 (Glycine max), 3'ss of exon 8
-ccttgaatatgtta-atttcttcatcttttgtcgctggagttaaaaattgattgagtgtttacatgaatagtcagtgataatcaaag--tttatgtgttgcagGTTGCTCGCAGTGGTCACACTGTGGTCAGAGCAAGCTCTGTCTTAATCCTATTTGGGGGTGAAGATTCTAAAAGAAGGAAACTCAATGATCTACATATGT
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aatgagaatatgacacattacctgaactaatgt-atcaaatttag---tttcttctattgaaatctttctaggcagtactgaccaaatactttgttctttacagGTTGCTCGCAGTGGTCACACTGTTGTTATGGCTAACTCTGTTTTAATATTGTTTGGAGGAGAAGATGCAAAAAGGAGGAAACTGAATGATCTACATATGT
upper sequence: Vv05s0020g01740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA07G38020.1 (Glycine max), 3'ss of exon 7
ccttgaatatgttaatttcttcatcttttgtcgctggagttaaaaattgattgagtgtttacatgaa--tagtcagtgataatcaaag--tttatgtgttgcagGTTGCTCGCAGTGGTCACACTGTGGTCAGAGCAAGCTCTGTCTTAATCCTATTTGGGGGTGAAGATTCTAAAAGAAGGAAACTCAATGATCTACATATGT
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ctttgttttttttcaattaa--aatctctgta--cggactttgacaccttgagattaatatcatagacctaggcagtactgaacaaagagtttgttcttgtcagGTTGCTCGCAGTGGTCATAGTGTTGTTAGAGCGAGCTCTGTTTTAATATTGTTTGGTGGTGAGGATGCAAAAAGGAGGAAATTGAATGATCTACATATGT
upper sequence: Vv05s0020g01740.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G28760.1 (Glycine max), 3'ss of exon 6
ccttgaatatgttaatttcttcatcttttgtcgctggagttaaaaattgattgagtgttt---acatgaat--agtcagtgataatcaaagtttatgtgttgcagGTTGCTCGCAGTGGTCACACTGTGGTCAGAGCAAGCTCTGTCTTAATCCTATTTGGGGGTGAAGATTCTAAAAGAAGGAAACTCAATGATCTACATATGT
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-----aagacatgagctgaaagaattgcacactaagaatatagaaactgaatgagaatatgacacattagctgaactaatgtatgataaattttgttcttggcagGTTGCTCGCAGTGGTCACACTGTTGTTATGGCTAACTCTGTTTTAATATTGTTTGGAGGAGAAGATGTAAAAAGGAGGAAACTGAATGATCTACATATGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgattgagtgtttacatgaatagtcagtgataatcaaagtttatgtgttgcagGTTGCTCGCAGTGGTCACACTGTGGTCAGAGCAAGCTCTGTCTTAATCCTATTTGGGGGTGAAGATTCTAAAAGAAGGAAACTCAATGATCTACATATGT
aattgat putative branch site (score: 4)
ataatcaaagtttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccttgaatatgttaatttcttcatcttttgtcgctggagttaaaaattgattgagtgtttacatgaatagtcagtgataatcaaagtttatgtgttgcagGTTGCTCGCAGTGGTCACACTGTGGTCAGAGCAAGCTCTGTCTTAATCCTATTTGGGGGTGAAGATTCTAAAAGAAGGAAACTCAATGATCTACATATGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
ccttgaa
- - - - - - - - - - - - - - - tcgctgg
- - - - - - - - - - - - - - - - - - - - taaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - -tgagtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatcaaa