Sequence
atgc intronic sequence ATGC exonic sequence...actctgttcatctgtgttcccatgaaatatatttgcctgagtgtgttgcaaacaccacatgacttaatgaaaaccttggtaattgcttgtttaattgaagGTTATGGCGGTAAAGAAAAACATTGAAGATGTACAAGGAAAAGACAACTATCCGTGTGGGCAACAATTATTGATTCATAATGGAAAGGTCTTGAAAGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0018g01400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G143462_T06 (Zea mays), 3'ss of exon 1
---actctgttcatctgtgttcccatgaaatatatttgcctgagtgtgttgcaaacaccacatgacttaatgaaaaccttggtaattgcttgtttaattgaagGTTATGGCGGTAAAGAAAAACATTGAAGATGTACAAGGAAAAGACAACTATCCGTGTGGGCAACAATTATTGATTCATAATGGAAAGGTCTTGAAAGATG
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ataatgcttgtcagctaactgttttgtgatcgtagttgaatgagttt--tattggcattcaat-attttgtcaaggttctactaaaggttccttatttaccagATTATGGCTGTGAAGAAGAATATAGAAGAGATACAAGGGAAAGACAGCTATCCATGGGGCCAACAACTGCTGATTTTCAATGGAAAGGTCTTGAAAGATG
upper sequence: Vv09s0018g01400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G23930.2 (Glycine max), 3'ss of exon 1
actctgttcatctgtgttcccatgaaatatatttgcctgagtgtgttgcaaacaccacatgacttaatgaa---aaccttggtaattgcttgtttaattgaagGTTATGGCGGTAAAGAAAAACATTGAAGATGTACAAGGAAAAGACAACTATCCGTGTGGGCAACAATTATTGATTCATAATGGAAAGGTCTTGAAAGATG
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-taattttgaagtgctattttttgaaatctattgtttatcagctgaaattgtcaatttgttgtttaattagctgaagttttctgcttttttgtcccatc--agGTTATGGCTGTCAAGAAGAATATTGAAGATGTACAAGGAAAAGATAATTACCCATGTGGACAGCAATTGTTGATTCACAATGGCAAGGTTTTGAAAGATG
upper sequence: Vv09s0018g01400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G00490.1 (Glycine max), 3'ss of exon 1
-----actctgttcatctgtgttcccatgaaatatatttgcctgagtgtgttgcaaacaccacatgacttaatgaaaaccttggtaattgcttgttta--attgaagGTTATGGCGGTAAAGAAAAACATTGAAGATGTACAAGGAAAAGACAACTATCCGTGTGGGCAACAATTATTGATTCATAATGGAAAGGTCTTGAAAGATG
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ggaaaattttgaagtgctatgtttc----aaattctattgttta--tcagccgaaattatca-atttgttgtttattagctgagtgttcttctttttgtcacctcagGTTATGGCTGTCAAGAAGAATATTGAAGATGTACAAGGAAAAGATAATTACCCATGTGGACAGCAATTGCTGATTCACAATGGTAAGGTTTTGAAAGATG
upper sequence: Vv09s0018g01400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G44910.1 (Glycine max), 3'ss of exon 1
---actctgttcatctgtgttcccatgaaatatatttgcctgagtgtgttgcaa-acaccacatgacttaatgaaaaccttggtaattgcttgt-ttaattgaagGTTATGGCGGTAAAGAAAAACATTGAAGATGTACAAGGAAAAGACAACTATCCGTGTGGGCAACAATTATTGATTCATAATGGAAAGGTCTTGAAAGATG
| || | |||| | || | ||| | | | | || | | | ||| || | || | || || || | || | || ||||||| || ||||| || || |||||||||||||| |||||||| || || ||||| || ||||| | ||||| ||||| ||||| ||||||||||
gtcagtcatatgatctcattcccaacccaattctgctttttaatttcattcttccaaatcctatgcatttcttaa-----ttgtgatgttttatcttcacctcagATTATGGCAGTCAAGAAGAATATCGAAGATGTACAAGGCAAAGACAATTACCCATGTGGACAGCAATTGCTCATTCACAATGGTAAGGTTTTGAAAGATG
upper sequence: Vv09s0018g01400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G16190.1 (Arabidopsis thaliana), 3'ss of exon 1
actctgttcatctgtgttcccatgaaatatat---ttgcctgagtgtgtt-gcaaacaccacatgacttaatgaaaaccttggtaattgcttgtttaatt-gaagGTTATGGCGGTAAAGAAAAACATTGAAGATGTACAAGGAAAAGACAACTATCCGTGTGGGCAACAATTATTGATTCATAATGGAAAGGTCTTGAAAGATG
| | | | |||| ||||||| || ||| ||||||| || | | | || | | | | ||| | || || ||| || |||| | |||||||| ||||| || ||||||||| |||| | |||||||||||||| |||||||| |||||| ||||||| ||||||||||| ||||||||||
-----agtttttttttttccgatgaaatggatgggttgagtgagtgtatttgtctatgagttcttacatggttatatcctggaatttttctactttgctttgaagATAATGGCGGTGAAGAAGAATATTGAAGATTCACAAAGCAAAGACAACTATCCTTGTGGGCAGCAATTACTGATTCACAATGGAAAGGTTTTGAAAGATG
upper sequence: Vv09s0018g01400.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G79650.1 (Arabidopsis thaliana), 3'ss of exon 1
actctgttcatctgtgttcccatgaaatatatttg-cctgagtgtgttgcaaacaccacatgacttaatgaaaaccttggtaattgcttgtttaattg-aagGTTATGGCGGTAAAGAAAAACATTGAAGATGTACAAGGAAAAGACAACTATCCGTGTGGGCAACAATTATTGATTCATAATGGAAAGGTCTTGAAAGATG
||| | | | | | ||| || || || |||| | | | | || ||| || || || || ||| | |||||||| ||||| || || |||||| ||||||||||||||| ||||| |||||||| ||||| |||||||| |||||||| || ||||||||||
--actgctaaaattatgactcgcgaatccaatctggtttggtcaagttgattatgttagtcttcaaatcattaaatctgggcatgatgtgcttgtttttaagATAATGGCGGTGAAGAAGAATATAGAAGATTCACAAGGAAAAGACAATTATCCATGTGGGCAGCAATTGTTGATTCACAATGGAAAAGTTTTGAAAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcaaacaccacatgacttaatgaaaaccttggtaattgcttgtttaattgaagGTTATGGCGGTAAAGAAAAACATTGAAGATGTACAAGGAAAAGACAACTATCCGTGTGGGCAACAATTATTGATTCATAATGGAAAGGTCTTGAAAGATG
gtttaat putative branch site (score: 4)
cttgttt CT-rich tract
ttaatgaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actctgttcatctgtgttcccatgaaatatatttgcctgagtgtgttgcaaacaccacatgacttaatgaaaaccttggtaattgcttgtttaattgaagGTTATGGCGGTAAAGAAAAACATTGAAGATGTACAAGGAAAAGACAACTATCCGTGTGGGCAACAATTATTGATTCATAATGGAAAGGTCTTGAAAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - cccatga
- - - - - - - - - - - - - - - - -tgcctga
- - - - - - - - - - - - - - - - - - - - - -tgttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - caccaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttgt