Sequence
atgc intronic sequence ATGC exonic sequence...taattacccaaaattctgcattccttcaagtagttactggctcatttcttgattaggaagatgaaactttaacaaataaggtattgttttgaatttccagAACTGCAGAGCTAGTGGAAGCAGTATTGCAAGGGAGGAATGGGTCAGTGTTCTGTTATGGTGCCACAGGAGCTGGAAAAACATACACAATGCTGGGTACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g04330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g42070.1 (Oryza sativa), 3'ss of exon 1
taattacccaaaattctgcattccttcaa--gtagttactggctcatttcttgattaggaagatgaaactttaacaaataaggtattgttttgaatttccagAACTGCAGAGCTAGTGGAAGCAGTATTGCAAGGGAGGAATGGGTCAGTGTTCTGTTATGGTGCCACAGGAGCTGGAAAAACATACACAATGCTGGGTACA
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tcatgagaaagtgtactagccttgttcgattgcgattcatcgctaaaatccgg--tacatatatagcatggagttaattatccatcttctttgatgctgcagAACATCAGATCTTGTGGAGGGTGTTCTGCAAGGTAGGAATGGGACGGTGTTCTGCTATGGAGCCACTGGTGCTGGGAAGACCTACACAATGCTTGGGACG
upper sequence: Vv17s0000g04330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G22930.1 (Glycine max), 3'ss of exon 2
---taattac-ccaaaattctgcattccttcaagtagttactggctcatttcttgattaggaagatgaaactttaacaaataaggtattgttttgaatttccagAACTGCAGAGCTAGTGGAAGCAGTATTGCAAGGGAGGAATGGGTCAGTGTTCTGTTATGGTGCCACAGGAGCTGGAAAAACATACACAATGCTGGGTACA
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gtttgacagcactaatatgcggcatgcattcaaaatctta-tagcttaggtgt-actcatttatgtttga-tggaaggtatacattgac-ttttactttttcagAACCTCAGAACTTGTGGAAGCAGTTCTGCAAGGGAGGAATGGATCAGTTTTCTGTTATGGTGCCACCGGAGCTGGAAAAACTTATACAATGCTTGGTACA
upper sequence: Vv17s0000g04330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G07770.1 (Glycine max), 3'ss of exon 1
taattaccca-aaattctgcattccttcaagtagttactggctcatttcttgattaggaagatgaaactttaacaaataaggtattgt-tttgaatttccagAACTGCAGAGCTAGTGGAAGCAGTATTGCAAGGGAGGAATGGGTCAGTGTTCTGTTATGGTGCCACAGGAGCTGGAAAAACATACACAATGCTGGGTACA
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atgtgatgtgtaggtaaaacattgttgacaagggtgtttagacaatttcatgcttaataa--tgatattcagctttagtgaacattgagtttgatttttcagGACTTCAGAGCTTGTGGAAGCGGTTTTGCAAGGGAGGAATGGTTCAGTTTTCTGTTATGGTGCAACAGGAGCTGGGAAGACTTACACAATGCTTGGGACG
upper sequence: Vv17s0000g04330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G13240.1 (Glycine max), 3'ss of exon 1
---taattacccaaaattctgcattccttcaagtagtt-actggctcatttcttgattaggaagatgaaactttaacaa-ataaggtattgt-tttgaatttccagAACTGCAGAGCTAGTGGAAGCAGTATTGCAAGGGAGGAATGGGTCAGTGTTCTGTTATGGTGCCACAGGAGCTGGAAAAACATACACAATGCTGGGTACA
||| | | | || | || |||| || | ||| | | | | | | || ||| || || |||| ||||| ||| ||| ||| ||||||| |||||||| || |||||||||||||||||||| || |||||||| || || || |||||||| || || ||||||||||| || ||
caataagtgtttagggagaag--tttatctaacaagttgacaagggtgtttatgcaatttcatgcttaa----taataatattcatcattgagtttgatttttcagGACTTCAGAGCTTGTGGAAGCGGTTTTGCAAGGGAGGAATGGGTCGGTTTTCTGTTACGGGGCGACGGGAGCTGGGAAGACTTACACAATGCTTGGGACG
upper sequence: Vv17s0000g04330.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S353_36V6.1 (Physcomitrella patens), 3'ss of exon 3
---taattacccaaaattctgcattccttcaagtagttactggctcatttcttgattaggaagatgaaactttaacaaataaggtattgttttgaatttccagAACTGCAGAGCTAGTGGAAGCAGTATTGCAAGGGAGGAATGGGTCAGTGTTCTGTTATGGTGCCACAGGAGCTGGAAAAACATACACAATGCTGGGTACA
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tcatcgtggacttaaatggttcttggaatccaatcagt-ccagcctactggtcttctttgaaggttacagat--actgatacgtttcttttttgaacactcagCACTGCCCAACTCGTGGAAGGAGTACTGCAAGGGAGGAACGGATCAGTATTTTGTTACGGTGCCACTGGTGCTGGAAAGACGCACACAATGTTAGGGACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttgattaggaagatgaaactttaacaaataaggtattgttttgaatttccagAACTGCAGAGCTAGTGGAAGCAGTATTGCAAGGGAGGAATGGGTCAGTGTTCTGTTATGGTGCCACAGGAGCTGGAAAAACATACACAATGCTGGGTACA
ctttaac putative branch site (score: 3)
tttcc putative PPT
aaactttaacaaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taattacccaaaattctgcattccttcaagtagttactggctcatttcttgattaggaagatgaaactttaacaaataaggtattgttttgaatttccagAACTGCAGAGCTAGTGGAAGCAGTATTGCAAGGGAGGAATGGGTCAGTGTTCTGTTATGGTGCCACAGGAGCTGGAAAAACATACACAATGCTGGGTACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - cccaaaa
- - - - - - - - -gcattcc
- - - - - - - - - - - - -tcaagta
- - - - - - - - - - - - - - - - -ttactgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - aggaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaataa