Sequence
atgc intronic sequence ATGC exonic sequence...tttcgatgagattattcatgaatgcagtatatttctgtagttcatgtattattattggtgcattcatcttgattattttttattttttgggagattgcagGGATATGGATCCTTTTTATTGCGAGATTTACCTTTTGATGCTCTCCAGTTTTGCATCTATGAGCAGCTACGGATAGGGTATAAGCTAGCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0157g00180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os07g19460.1 (Oryza sativa), 3'ss of exon 7
tttcgatgagattattcatgaatgcagtatatttctgtagttcatgtattattattggtgcattcatcttgattattttttattttttgggagattgcagGGATATGGATCCTTTTTATTGCGAGATTTACCTTTTGATGCTCTCCAGTTTTGCATCTATGAGCAGCTACGGATAGGGTATAAGCTAGCG
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-------gtatgtatctttgagtttatactataccacttccctatgt-ttatgttttgctcagccaa--tgcttactcttgctacatttgat--ttttagGGCTATGGTTCCTTTCTGTTGCGAGATCTACCATTTGATGCTATTCAGTTTTGCATATATGAGCAACTTCGAATAGGCTATAAACTGGCG
upper sequence: Vv18s0157g00180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G31020.1 (Glycine max), 3'ss of exon 2
tttcgatgagattattcatgaatgcagtatatttctgtagttcatgtattattattggtgcattcatcttgat-tattttttattttttgggagattgcagGGATATGGATCCTTTTTATTGCGAGATTTACCTTTTGATGCTCTCCAGTTTTGCATCTATGAGCAGCTACGGATAGGGTATAAGCTAGCG
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-ttccattttacaagctatttgaataatgtgtgtgtgtggttaactttagttttttgttttaccagccttgacctctacttttgtttttatgagattgtagGGATATGGATCTTTCTTATTGCGAGATTTACCATTTGATGCTATAGAATTATGCATTTATGAGCAGCTCCGTATTGGGTATAAATTAGCG
upper sequence: Vv18s0157g00180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G36580.3 (Glycine max), 3'ss of exon 8
tttcgatgagattattcatgaatgcagtatatttctgta-gttcatgtattattattggtgcattcatcttgattattttttattttttgg-gagattgcagGGATATGGATCCTTTTTATTGCGAGATTTACCTTTTGATGCTCTCCAGTTTTGCATCTATGAGCAGCTACGGATAGGGTATAAGCTAGCG
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ttttacttg--ctatttgaatattatatataattatatatgctaactttagttttttgttttaccagccttgacctctaattttgttttaatgagattatagGGATATGGATCTTTCTTATTGCGAGATTTACCATTTGATGCTATAGAATTATGCATTTATGAGCAGCTCCGTATTGGGTATAAATTAGCG
upper sequence: Vv18s0157g00180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G34065.1 (Arabidopsis thaliana), 3'ss of exon 8
---------------------------tttcgatga--gattattcatgaatgcagta--tatttctgtagttcatgtattattattggtgcattcatcttgattattttttattttttgggagattgcagGGATATGGATCCTTTTTATTGCGAGATTTACCTTTTGATGCTCTCCAGTTTTGCATCTATGAGCAGCTACGGATAGGGTATAAGCTAGCG
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gtatacctgttacttcttgatttatggttttagtgttttactattt-tatttgtagcaggcacaccttgaggttaagatgaacagacaacaaaagctccatg-taatgtaatatgttcctaaacat-gcagGGTTATGGATCCTTCTTATTGCGAGATTTGCCTTTTGACGCGCTCCAGTTTTGTGTTTATGAGCAATTACGAATTGGATACAAGTTGGCT
upper sequence: Vv18s0157g00180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S139_9V6.1 (Physcomitrella patens), 3'ss of exon 8
-------------------------------------------------------------tttcgatgagattattcatgaatgcagtatatttctgtagttcatgtattattattggtgcattcatcttgattattttttattttttgggagattgcagGGATATGGATCCTTTTTATTGCGAGATTTACCTTTTGATGCTCTCCAGTTTTGCATCTATGAGCAGCTACGGATAGGGTATAAGCTAGCG
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gtaagtttttgagctttctgaatgatcagagtctccatgcttatatgattcttttgcgtgtgttcgtccgccctgcccgtggaca-agtat-cacataattttcccacaaccttgttagtatgaat-tcatgcttacactgtcattggttgtgatttacagGGCTTTCGTTCATTCTTGTTACGAGACCTACCATTTGATGCATTCCAGTTTTGCATCTATGAGCAATTAAAGATCAGTTATGCAAAACGG
upper sequence: Vv18s0157g00180.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S450_16V6.1 (Physcomitrella patens), 3'ss of exon 8
----------tttcgatgagattat--tcatgaa--tgcagtatattt-ctgtagttcatgtattattat---tggtgcattcatcttgattattt--tttatt--ttttgggagattgcagGGATATGGATCCTTTTTATTGCGAGATTTACCTTTTGATGCTCTCCAGTTTTGCATCTATGAGCAGCTACGGATAGGGTATAAGCTAGCG
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gtatgtgatctttctcttagcttgtcttcaagaaattccatcactctcgttatgtcccatttatctgcatgtgcaggaagtgtacttcgattgtacactctaatggtctttttgaattgcagGGTTTTGGATCTTTCCTCCTTCGAGATTTACCATTTGATGCTATCCAGTTTTGCATTTACGAGCAGCTTAGATTGGGCTTGAAGAAAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtattattattggtgcattcatcttgattattttttattttttgggagattgcagGGATATGGATCCTTTTTATTGCGAGATTTACCTTTTGATGCTCTCCAGTTTTGCATCTATGAGCAGCTACGGATAGGGTATAAGCTAGCG
tcttgat putative branch site (score: 4)
attcatcttgattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcgatgagattattcatgaatgcagtatatttctgtagttcatgtattattattggtgcattcatcttgattattttttattttttgggagattgcagGGATATGGATCCTTTTTATTGCGAGATTTACCTTTTGATGCTCTCCAGTTTTGCATCTATGAGCAGCTACGGATAGGGTATAAGCTAGCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - -gaatgca
- - - - - - - - - - - - - - - - - - - - -tcatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcattca