Sequence
atgc intronic sequence ATGC exonic sequencegtagtataattctctcgattcaattttcttgtatttaatgatattgatacctaagcttataaaatatagcatcctcagttctttctatgtttctgtacagTGTGTTCACTCCATATTATTCTGAGACTGTGCTTTATAGTATGGATGAACTCCAAAAGAAAAATGAGGATGGAATATCAACATTGTTTTACCTCCAGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 27
lower sequence: GRMZM2G442324_T01 (Zea mays), 3'ss of exon 25
----------------------------------------------------------------gtagtataattctctcgattcaattttcttgtatttaatgatattgatacctaagctta-taaaatatagcatcctcagttctttctatgtttctgtacagTGTGTTCACTCCATATTATTCTGAGACTGTGCTTTATAGTATGGATGAACTCCAAAAGAAAAATGAGGATGGAATATCAACATTGTTTTACCTCCAGAAA
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gtggggctcctttagtctatttgcttgttcattttgttgtggacttgccacttctcttttggttgcaatttgattattttgttctgtgcatttt---tcccctggtttggctgttcaattatactattttcttacattctgtgt-cttcattttttgttatgcagTGTGTTTACTCCATATTACTCTGAGATTGTTCTCTACAGCATGGCTGAACTTCAGAAGAAAAACGAAGACGGTATAACTACACTGTTTTATCTCCAGAAG
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 27
lower sequence: GLYMA20G38860.1 (Glycine max), 3'ss of exon 32
gtagtataattctctcgattcaattttcttgtatttaatgatattgatacctaagcttataaaatatagcatcctcagttctttctatgtttctgtacagTGTGTTCACTCCATATTATTCTGAGACTGTGCTTTATAGTATGGATGAACTCCAAAAGAAAAATGAGGATGGAATATCAACATTGTTTTACCTCCAGAAA
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-------------------gtaaatctcttctcttggaagaaattattaccct-----------tagtgttttcatgcttatctttttttttttgtgcagTGTTTTCACTCCTTATTATTCTGAGATTGTGCTATATAGCATGGCTGAACTCCTAAAGAAAAATGAAGATGGCATTTCAATTTTGTTCTACCTTCAGAAG
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 27
lower sequence: GLYMA10G44150.2 (Glycine max), 3'ss of exon 30
gtagtataattctctcgattcaattttcttgtatttaatgatattgatacctaagcttataaaatatagcatcctcagttctttctatgtttctgtacagTGTGTTCACTCCATATTATTCTGAGACTGTGCTTTATAGTATGGATGAACTCCAAAAGAAAAATGAGGATGGAATATCAACATTGTTTTACCTCCAGAAA
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-------------------gtaaatcttttctcttgaaagaaattattaccttagtgtttt--------catgctta--tccttttttgtgtgtgtgcagTGTTTTCACTCCTTATTATTCTGAGATTGTGCTTTATAGCATGGCTGAACTCCTAAAGAAAAACGAAGACGGCATTTCAATTTTGTTCTACCTTCAGAAG
upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 27
lower sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 30
gtagtataattctctcgattcaattttcttgtatttaatgatattgatacctaagcttataaaatatagcatcctcagttctttctatgtttctgtacagTGTGTTCACTCCATATTATTCTGAGACTGTGCTTTATAGTATGGATGAACTCCAAAAGAAAAATGAGGATGGAATATCAACATTGTTTTACCTCCAGAAA
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---------------gtatttctttctccatactttcgtcatatt---atctaagcaagctcttcacaagttactatcttcttt-tggattatttttcagTGTCTTCACTCCATACTATTCCGAGGTTGTGCTATACAGCATGGCTGAACTCACCAAGAGAAATGAGGATGGAATATCAATACTGTTTTATCTTCAGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatacctaagcttataaaatatagcatcctcagttctttctatgtttctgtacagTGTGTTCACTCCATATTATTCTGAGACTGTGCTTTATAGTATGGATGAACTCCAAAAGAAAAATGAGGATGGAATATCAACATTGTTTTACCTCCAGAAA
tattgat putative branch site (score: 3)
ttctttctatgtttct putative PPT
taagcttataaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtataattctctcgattcaattttcttgtatttaatgatattgatacctaagcttataaaatatagcatcctcagttctttctatgtttctgtacagTGTGTTCACTCCATATTATTCTGAGACTGTGCTTTATAGTATGGATGAACTCCAAAAGAAAAATGAGGATGGAATATCAACATTGTTTTACCTCCAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA