Sequence
atgc intronic sequence ATGC exonic sequence...taaggtgttttctgccgttatattcttcaatactattttaaaaaatagaatatcacaaaatttgtttgatttgagaagcaaatgcgttttatgattttagGGATGCTGAAGATCATATCTCTTGGCTCCTTCAACATGGGTGGCATGAAAAAGCTTTAGCAGCAGTTGAAGCAGGGCAAGGGCGGAGTGAACTCCTTGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g00940.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os04g11880.1 (Oryza sativa), 3'ss of exon 6
-------taaggtgttttctgccgttatattcttcaatactattttaaaaaatagaatatcacaaaatttgt-ttgatttgagaagcaaatgcgttttatgattttagGGATGCTGAAGATCATATCTCTTGGCTCCTTCAACATGGGTGGCATGAAAAAGCTTTAGCAGCAGTTGAAGCAGGGCAAGGGCGGAGTGAACTCCTTGAT
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tttgtgtttctgagctttctataaggacatggcaaaatttcatttcagaaaatgttgtatctttatatttctactgatat--------aatatgtgctttcaaattagAGATGCTGAAGACCATATTTCTTGGCTTCTTCAACATGGTTGGCATGAAAAGGCATTGGCTGCAGTTGAAGCAGGACAAGGACGAACCGAGCTTCTTGAT
upper sequence: Vv06s0061g00940.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G040247_T01 (Zea mays), 3'ss of exon 6
-taaggtgttttctgccgttatat-tcttcaatactattttaaaaaatagaatatcacaaaatttgtttgatt-tgagaagcaaatgcgttttatgattttagGGATGCTGAAGATCATATCTCTTGGCTCCTTCAACATGGGTGGCATGAAAAAGCTTTAGCAGCAGTTGAAGCAGGGCAAGGGCGGAGTGAACTCCTTGAT
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tccattacctttcagtaaaagtaaatcgttttgactgtcctgtggca-aaattttcccaaaaataatcccatgattaatatagtgtgcaccttctgatt--agAGATGCTGAAGATCATATTGCTTGGCTTCTTCAACATGGTTGCCATGAAAAAGCATTGGCTGCAGTTGAGGCAGGGCAAGGACGCACTGAGCTTCTTGAT
upper sequence: Vv06s0061g00940.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G19660.2 (Glycine max), 3'ss of exon 6
-taaggtgttttc--tgccgttatattcttcaatactattttaaaaaatagaatatcacaaaatttgtttgatttgagaagcaaatgcgttttatgattttagGGATGCTGAAGATCATATCTCTTGGCTCCTTCAACATGGGTGGCATGAAAAAGCTTTAGCAGCAGTTGAAGCAGGGCAAGGGCGGAGTGAACTCCTTGAT
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ttgatacatttaaaatgacatgtttatgttctaagtttttctacagatttgaaaaa-attaaattagataatgtagaaaaattgatgtttttaataatc--agGGATACTGAAGATCATATTTCATGGCTTCTTCAGCATGGGTGGCATGAAAAAGCTTTGGCTGTGGTTGAATCTGGTCAGGGACGGAGTGAACTACTTGAT
upper sequence: Vv06s0061g00940.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G08840.1 (Glycine max), 3'ss of exon 6
taaggtgttttc--tgccgttatattcttcaatactattttaaaaaatagaatatcacaaaatttgtttgatttgagaagcaaatgcgttttatgattttagGGATGCTGAAGATCATATCTCTTGGCTCCTTCAACATGGGTGGCATGAAAAAGCTTTAGCAGCAGTTGAAGCAGGGCAAGGGCGGAGTGAACTCCTTGAT
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tgatacatttaaaatgtcatgttgatgttctaagtttttcgacagatttgaaaaa-attacattagatattttagaaaaattgatgtgttttaataatc-agGGATACTGAAGATCATATTGCATGGCTTCTTCAGCACGGGTGGCATGAAAAAGCTTTGGCTGTGGTTGAATCTGGCCAGGGACGGAGTGAACTACTTGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagaatatcacaaaatttgtttgatttgagaagcaaatgcgttttatgattttagGGATGCTGAAGATCATATCTCTTGGCTCCTTCAACATGGGTGGCATGAAAAAGCTTTAGCAGCAGTTGAAGCAGGGCAAGGGCGGAGTGAACTCCTTGAT
gtttgat putative branch site (score: 5)
aaaatttgtttgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaggtgttttctgccgttatattcttcaatactattttaaaaaatagaatatcacaaaatttgtttgatttgagaagcaaatgcgttttatgattttagGGATGCTGAAGATCATATCTCTTGGCTCCTTCAACATGGGTGGCATGAAAAAGCTTTAGCAGCAGTTGAAGCAGGGCAAGGGCGGAGTGAACTCCTTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - tctgccg
- - - - - - - - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - -cacaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagcaaa