Sequence
atgc intronic sequence ATGC exonic sequence...agttccagtttagagaaaaaatacttagttgctaacttgcattaatgtttcatcaaggtgtattttaaaccccctttgatccaaatggtttccatggcagGTTCCAAAGCTTCTACTGCATAGGATGTTCCCTAATGCTCGCTATTCTCTGTGGATTGATGGAAAGCTTGAGCTTGTGGTGGATCCATTTCAAATTCTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0265g00120.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G24770.1 (Glycine max), 3'ss of exon 5
-agttccagtttagagaaaaaatacttagttgctaacttgcattaatgtttcatcaaggtgtattttaaaccccctttgatccaaatggtttccatggcagGTTCCAAAGCTTCTACTGCATAGGATGTTCCCTAATGCTCGCTATTCTCTGTGGATTGATGGAAAGCTTGAGCTTGTGGTGGATCCATTTCAAATTCTTG
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gaattgaataaaattaaacttttgcctaggtgctgatgtgttttctcattcc-taaagtagtactttgcatactctgtaacttttactaccttttccacagATTCCAAAGCTTCTGTTGCATAGATTGGTTCCGAATGCTCGCTATTCTATATGGCTTGATGGGAAGCTTGAGCTTGTTGTGGATCCATATCAAATTCTTG
upper sequence: Vv00s0265g00120.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G31680.1 (Glycine max), 3'ss of exon 5
-agttccagtttagagaaaaaatacttagttgctaacttgcattaatgtttcatcaaggtgtattttaaaccccctttgatccaaatggtttccatggcagGTTCCAAAGCTTCTACTGCATAGGATGTTCCCTAATGCTCGCTATTCTCTGTGGATTGATGGAAAGCTTGAGCTTGTGGTGGATCCATTTCAAATTCTTG
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gaattgaataaaattaaacttttgactaggtgctgatgtgttttcatgttcc-taaagtagtactttacataccctataaattttaccaccttttccacagATTCCAAAGCTTTTGTTGCATAGATTGGTTCCGAATGCTCGCTATTCTATATGGCTTGATGGGAAGCTTGAGCTTGTTGTGGATCCATATCAAATTCTTG
upper sequence: Vv00s0265g00120.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G31260.1 (Glycine max), 3'ss of exon 5
agttccagtttagagaaaaaatac--ttagttgctaacttgcattaatgtttcatcaaggtgtattttaaaccccctttgatccaaatggtttccatggcagGTTCCAAAGCTTCTACTGCATAGGATGTTCCCTAATGCTCGCTATTCTCTGTGGATTGATGGAAAGCTTGAGCTTGTGGTGGATCCATTTCAAATTCTTG
||| | | | | ||| | | | || || | || |||| ||| || ||| ||| | | | | | || | | |||| ||||||||||||| ||||||| ||| | || ||||| | ||||||| | ||| |||||||||||||||||||||| || ||||||| |||||| ||||
-gtttaaaataacaaaaatatctcagtcagacactgttgtattttcttgtt-cataaaatagtacttttatgtacttgtaacttaagctatcttttctgcagATTCCAAAGCTTCTGTTGCATAGAATGGTTCCAAATGCCCACTATTCTATATGGCTTGATGGAAAGCTTGAGCTTGTTGTTGATCCATATCAAATCCTTG
upper sequence: Vv00s0265g00120.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G08090.1 (Glycine max), 3'ss of exon 5
agttccagtttagagaaaaaatacttagttgctaact--tgcattaatgt-ttcatcaaggtgtattttaaaccccctttgatccaaatggtttccatggcagGTTCCAAAGCTTCTACTGCATAGGATGTTCCCTAATGCTCGCTATTCTCTGTGGATTGATGGAAAGCTTGAGCTTGTGGTGGATCCATTTCAAATTCTTG
| | || |||| || || | | |||| || ||| | |||| ||| ||| ||||| | | | || | | |||| |||| |||||||| ||||||| ||| | || ||||| ||||||||| | ||| |||||||||||||||||||||| || ||||||| |||||| ||||
--attgaaaataacaaaaatat-ctcattcagaaactgttgtattttcttgctcataaagtagtactttaatgtaattgtaacgtaagttaccttttctgcagATTCCTAAGCTTCTGTTGCATAGAATGGTTCCAAATGCCCGCTATTCTATATGGCTTGATGGAAAGCTTGAGCTTGTTGTTGATCCATATCAAATCCTTG
upper sequence: Vv00s0265g00120.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G18630.1 (Glycine max), 3'ss of exon 3
agttccagtttagagaaaaaatacttagttgctaact--tgcattaatgt-ttcatcaaggtgtattttaaaccccctttgatccaaatggtttccatggcagGTTCCAAAGCTTCTACTGCATAGGATGTTCCCTAATGCTCGCTATTCTCTGTGGATTGATGGAAAGCTTGAGCTTGTGGTGGATCCATTTCAAATTCTTG
| | || |||| || || || ||| || ||| | || || || ||| ||| | | | | | || | | |||| ||||||||||||| ||||||| ||| | || ||||| | ||||||| | ||| ||||| |||||||||||||| | || ||||||| |||||| ||||
--attgaaaataacaaaaatat-ctcagccagacactgttgtattttcttgttgataaaatagtacttttatgtacttgtaacttaagctatcttttctgcagATTCCAAAGCTTCTGTTGCATAGAATGGTTCCAAATGCCCACTATTCTATATGGCTTGATAGAAAGCTTGAGCTTCTTGTTGATCCATATCAAATCCTTG
upper sequence: Vv00s0265g00120.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G28240.1 (Arabidopsis thaliana), 3'ss of exon 5
agttccagtttagagaaaaaatacttagttgctaacttgcattaatgtttcatcaaggtgtattttaaaccccctttg-atccaaatggtt---tccatggcagGTTCCAAAGCTTCTACTGCATAGGATGTTCCCTAATGCTCGCTATTCTCTGTGGATTGATGGAAAGCTTGAGCTTGTGGTGGATCCATTTCAAATTCTTG
|| || | | | || | | || | | || | | || | | |||| || || || | ||| || || | | |||| || |||||||| | ||||||||||| || ||||||||||||||| | |||||||| ||||| || || ||||| || ||||||| |||||||||||
agatctcac---gggtcacggcacatggctgatt-ccaaaatggacagagtaaagagagagaatataaatgccattgatatgctgatgctttgttctcttgtagGTGCCCAAGCTTCTTGTCCATAGGATGTTTCCAAATGCTCGCTATTCTTTATGGATTGACGGAAAACTAGAACTTGTCGTCGATCCATATCAAATTCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttcatcaaggtgtattttaaaccccctttgatccaaatggtttccatggcagGTTCCAAAGCTTCTACTGCATAGGATGTTCCCTAATGCTCGCTATTCTCTGTGGATTGATGGAAAGCTTGAGCTTGTGGTGGATCCATTTCAAATTCTTG
ctttgat putative branch site (score: 5)
tttccat putative PPT
tgtattttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agttccagtttagagaaaaaatacttagttgctaacttgcattaatgtttcatcaaggtgtattttaaaccccctttgatccaaatggtttccatggcagGTTCCAAAGCTTCTACTGCATAGGATGTTCCCTAATGCTCGCTATTCTCTGTGGATTGATGGAAAGCTTGAGCTTGTGGTGGATCCATTTCAAATTCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - -cttgcat
- - - - - - - - - - - - - - - - - - - - - - - - -tcatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atccaaa