Sequence
atgc intronic sequence ATGC exonic sequence...ctctctctctcttgcacatgtggatagcatgtttattctattgcatacttgatgatgttccttcctttagaacaaatataattaaattttcaatgttcagATATACTACATCTGTGATCCCTATTGGTGCAACATTTGCAATGACTCTTTGGCTGGGAAACACTGCTTACCTGTATATTTCTGTTGCATTTGCACAAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os08g04110.2 (Oryza sativa), 3'ss of exon 3
ctctctctctcttgcacatgtggatagcatgt-ttattc-tattgcatacttgat-----gatgttccttcctttagaacaaatataattaaattttcaatgttcagATATACTACATCTGTGATCCCTATTGGTGCAACATTTGCAATGACTCTTTGGCTGGGAAACACTGCTTACCTGTATATTTCTGTTGCATTTGCACAAATG
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aacactgaactcccggcatattgcttgcttgtgttgttcataatgagtaccagaaatccagaattgtatttctttcttaccagtacatctgggcttgca-------gATATATTAGTTCAGTCATTCCAATCGGAGCAATGTTTGCAATGACACTCTGGCTAGGGAACAGTGCTTACCTCTATATATCTGTTGCATTTGCACAGATG
upper sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G022793_T01 (Zea mays), 3'ss of exon 3
ctctctctctcttgcac-atgtggatagcatgtttattctattgcatacttgatg---atgttccttcctttagaacaaatataattaaattttcaatgttcagATATACTACATCTGTGATCCCTATTGGTGCAACATTTGCAATGACTCTTTGGCTGGGAAACACTGCTTACCTGTATATTTCTGTTGCATTTGCACAAATG
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ttcatttgtgcttgtactatgatgttcctgaactcattgttttatttactttaagtacaagaactgtctttttttccttac-tagtt---ccctgaactttcagATATATTACTTCAGTCATTCCAATTGGAGGAATGTTTGCAATGACACTTTGGCTAGGGAACAGTGCGTACCTCTACATATCTGTCGCATTTGCACAGATG
upper sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G18730.1 (Glycine max), 3'ss of exon 4
----ctctctctctcttgcacatgtggatagcatgtttattctattgcatacttgatgatgttccttcctttagaacaaatataattaaattttcaatgtt-cagATATACTACATCTGTGATCCCTATTGGTGCAACATTTGCAATGACTCTTTGGCTGGGAAACACTGCTTACCTGTATATTTCTGTTGCATTTGCACAAATG
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aaattttttaacttcaagtctatgtaccttaatagtttattgcattaaatgcataa-gatgtttccaaattc----cagttgtaattataccttgattgtttcagATACGCTACTTCGGTAGTGCCAATTGGGGCCATGTTTGCAATGACTCTTTGGCTGGGAAATACTGCCTACCTGTATATTTCTGTTGCTTTTGCACAAATG
upper sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G40160.1 (Glycine max), 3'ss of exon 3
----ctctctctctcttgcacatgtggatagcatgtttattctattgcatacttgatgatgttccttcctttagaacaaatataattaaattttcaatgtt-cagATATACTACATCTGTGATCCCTATTGGTGCAACATTTGCAATGACTCTTTGGCTGGGAAACACTGCTTACCTGTATATTTCTGTTGCATTTGCACAAATG
| | || | |||| | |||||| ||| || | | | |||||| | || || | |||||| | || | |||| |||||| |||| || || | || ||||| || | |||||||||||||||||||||||||| ||||| |||||||||||||||||||| ||||||||||||
aaaattattaacttcaagtctatgttccttaatattttattgcattaaatgcataa-gatgtttccaaattc----cagttgtaattataccttgattgtttcagATACGCTACTTCAGTAGTGCCAATTGGGGCCATGTTTGCAATGACTCTTTGGCTGGGAAATACTGCCTACCTGTATATTTCTGTTGCTTTTGCACAAATG
upper sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G14410.1 (Arabidopsis thaliana), 3'ss of exon 3
-----------------ctctctctctcttgcacatgtggatagcatgtttattctattgcatacttgatgatgttccttcctttagaaca--aatataattaaattttcaatgttcagATATACTACATCTGTGATCCCTATTGGTGCAACATTTGCAATGACTCTTTGGCTGGGAAACACTGCTTACCTGTATATTTCTGTTGCATTTGCACAAATG
|| || | | | ||| | || |||| | | | || | | | | ||| | | ||| | |||||||| ||| || || || || || ||||||| ||||||||||| || ||| ||||||||||||| ||||| || || || ||||||||||| || |||
gtaaggaagaaagagacttcgtaaggaatttgattttggagtagtcgaaaatacccataacataaatatctttactaattttatcaatgtagcagtattaactcactttatgtactcagATATGTTACGTCAGTTATTCCAATAGGTGCAATGTTTGCAATGACCCTCTGGTTGGGAAACACTGCCTACCTCTACATATCAGTTGCATTTGCGCAGATG
upper sequence: Vv15s0046g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G53660.1 (Arabidopsis thaliana), 3'ss of exon 3
ctctctctctcttgcacatgtggatagcatgtttattctattgcatacttgatgatgttccttcc-tttagaacaaatataattaaattttcaatgttcagATATACTACATCTGTGATCCCTATTGGTGCAACATTTGCAATGACTCTTTGGCTGGGAAACACTGCTTACCTGTATATTTCTGTTGCATTTGCACAAATG
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--------gtaagaaagaaagtgtttctgtaagcaatttatt-tatttttga-gttgtaaataccgtttagctaaaacatcactctat-----gtactcagATATGTTACATCAGTTATTCCAATAGGTGCAATGTTTGCAATGACTCTATGGTTAGGAAACACTGCTTATCTCTACATAACTGTTGCATTTTCCCAAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacttgatgatgttccttcctttagaacaaatataattaaattttcaatgttcagATATACTACATCTGTGATCCCTATTGGTGCAACATTTGCAATGACTCTTTGGCTGGGAAACACTGCTTACCTGTATATTTCTGTTGCATTTGCACAAATG
acttgat putative branch site (score: 5)
ttttc putative PPT
tttagaacaaatataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctctctctctcttgcacatgtggatagcatgtttattctattgcatacttgatgatgttccttcctttagaacaaatataattaaattttcaatgttcagATATACTACATCTGTGATCCCTATTGGTGCAACATTTGCAATGACTCTTTGGCTGGGAAACACTGCTTACCTGTATATTTCTGTTGCATTTGCACAAATG
ctctctc
- - - - - - -gcacatg
- - - - - - - - - - - - - gcatgtt
- - - - - - - - - - - - - - - - - - - - - gcatact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aattaaa
