Sequence
atgc intronic sequence ATGC exonic sequence...agagatatgtgggttatgttccttattgtattcttgatcaatactggttcctttaaaatatgaaaatccatgcttagtaattaactaccgttttaaatagGTGGATGGGTTGGTTTTTTCTCATATGATACGGTTTGTTATGTGGAGAAGAAAAAGCTGCCATTCTCAAAAGCACAAGATGATGACAGAAATCTCGCAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g00400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G161337_T02 (Zea mays), 3'ss of exon 2
agagatatgtgggttatgttccttattgtattcttgatcaatactggttcctttaaaatatgaaaatccatgcttagtaattaactaccgttttaaatagGTGGATGGGTTGGTTTTTTCTCATATGATACGGTTTGTTATGTGGAGAAGAAAAAGCTGCCATTCTCAAAAGCACAAGATGATGACAGAAATCTCGCAGA
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--------gtgagcagcctcgattgctgagaaggagagaagatttgatgttgccgatgatgttatgtgaatagtcacttttggtcttctgttcttgatagGTGGATGGGTTGGGTTCTTTTCCTATGATACGGTTAGGTATGTTGAGAAGAAGAAGCTACCGTTCTCCAGTGCTCCTCAGGACGATAGGAACCTTCCTGA
upper sequence: Vv13s0067g00400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G03260.1 (Glycine max), 3'ss of exon 2
-agagatatgtgggttatgttccttattgtattcttgatcaatactggttcctttaaaatatgaaaatccatgcttagtaattaactaccgttttaaat--agGTGGATGGGTTGGTTTTTTCTCATATGATACGGTTTGTTATGTGGAGAAGAAAAAGCTGCCATTCTCAAAAGCACAAGATGATGACAGAAATCTCGCAGA
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cgtgctcatgtgaaagacagagagca--gtattcttga-cagctttctctaaatctaattatattacctacagtacattaacttgtttcagtttctcttttagGTGGTTGGGCAGGTTATTTCTCATATGACACTGTTCGTTATGTGGAAAAGAAAAAGCTACCATTTTCAAATGCTCCAGAGGATGACAGGAACCTTGCTGA
upper sequence: Vv13s0067g00400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G03270.1 (Glycine max), 3'ss of exon 2
agagatatgtgggttatgttccttattgtattcttgatcaatactgg--ttcctttaaaatatgaaaatccatgcttagtaattaact--accgttttaaatagGTGGATGGGTTGGTTTTTTCTCATATGATACGGTTTGTTATGTGGAGAAGAAAAAGCTGCCATTCTCAAAAGCACAAGATGATGACAGAAATCTCGCAGA
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atgcttgtgtgggt---gttcacttgcatgtgtgtgaaagacagagggctgtattcttgacgtgttttttcat-ctaattaacttgtttaagctgctcttctagGTGGTTGGGCAGGTTATTTCTCATATGACACTGTTCGTTATGTGGAAAAGAAAAAGCTACCATTTTCAAACGCTCCAGAGGATGACAGGAACCTTGCTGA
upper sequence: Vv13s0067g00400.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G05730.1 (Arabidopsis thaliana), 3'ss of exon 3
agagatatgtgggttatgttccttattgtattc-ttgatcaatactggttcctttaaaatatgaaaatccatg-cttagtaattaactaccgtttta-aatagGTGGATGGGTTGGTTTTTTCTCATATGATACGGTTTGTTATGTGGAGAAGAAAAAGCTGCCATTCTCAAAAGCACAAGATGATGACAGAAATCTCGCAGA
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-tagatagaagattgattgcccttagtgttttagtttactttttgtgctttatcttgttcatgaagtggtatctcttagtaa--gatttctttattatgatagGTGGGTGGGTTGGTTTTTTCTCGTACGACACTGTTCGTTATGTTGAGAAGAGGAAATTGCCATTTTCAAAGGCCCCTGAGGATGATAGGAACTTGCCAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttcctttaaaatatgaaaatccatgcttagtaattaactaccgttttaaatagGTGGATGGGTTGGTTTTTTCTCATATGATACGGTTTGTTATGTGGAGAAGAAAAAGCTGCCATTCTCAAAAGCACAAGATGATGACAGAAATCTCGCAGA
aattaac putative branch site (score: 2)
ccgtttt putative PPT
tttaaaatatgaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agagatatgtgggttatgttccttattgtattcttgatcaatactggttcctttaaaatatgaaaatccatgcttagtaattaactaccgttttaaatagGTGGATGGGTTGGTTTTTTCTCATATGATACGGTTTGTTATGTGGAGAAGAAAAAGCTGCCATTCTCAAAAGCACAAGATGATGACAGAAATCTCGCAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - gtgggtt
- - - - - - - - - - - - - - - - - - - - atactgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgct