Sequence
atgc intronic sequence ATGC exonic sequencegttgtttctgtcatctcatgccagacataaagcctttttctttatattctaaatatatgattttgtggatttcagATACACTTTGAAACTACAGGTCCAGAAATATGGGAGGATACTGTGGGTAGTGTTGACATATTTGTTGCTGGAATTGGGACTGGTGGTACTGTTACAGGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0056g00820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g59920.1 (Oryza sativa), 3'ss of exon 4
----------------------------gttgtttctgtcatctcatgccagacataaagcctttttctttatat----tctaaatatatgat---------tttgtggatttcagATACACTTTGAAACTACAGGTCCAGAAATATGGGAGGATACTGTGGGTAGTGTTGACATATTTGTTGCTGGAATTGGGACTGGTGGTACTGTTACAGGCA
|| || || | || || | |||| | ||| | || | || | || | | ||| ||| ||||| |||||| |||| ||||| |||||||||||||| || || |||||| |||||||||| | ||||| | ||||| || ||||| || |||||||||
gttgaaacttaagacatatcatttgctcatttttacttctgttatgtggcacatttaaaatccatttgccaaaatcttctttagaaatttattgagaagccacttggtaattacagATCCACTTTCAAACCACAGGCCCAGAAATATGGGAAGACACCTTGGGTACTGTTGACATACTAGTTGCAAGCATTGGCACAGGTGGCACCATTACAGGCA
upper sequence: Vv08s0056g00820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G00900.1 (Glycine max), 3'ss of exon 4
-------------------------------------------------------gttgtttctgtcatc--tcatgccaga---cataaagcctttttctttatattcta--aatatatgattttgtggatttcagATACACTTTGAAACTACAGGTCCAGAAATATGGGAGGATACTGTGGGTAGTGTTGACATATTTGTTGCTGGAATTGGGACTGGTGGTACTGTTACAGGCA
|| ||| | |||| | | | ||| ||||| || |||| || || || || | | ||| ||||| ||||| ||||||||||| ||||| |||||||||||||| |||||| |||||||||||| || ||||| ||||| |||||||| |||||||| ||||
gttaagtcttaatgcatctcccataagaccttcacttaatcaatcactgttttgaattatttatcgcatcaatgaaactagaaactataaaataaattaatttacatgttattaagatttatatgcacaaattacagATCCACTTCGAAACTACAGGGCCAGAGATATGGGAGGATACCATGGGTAATGTTGACATATTGGTAGCTGGGATTGGAACTGGTGGCACTGTTACTGGCA
upper sequence: Vv08s0056g00820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G29740.1 (Glycine max), 3'ss of exon 4
-------------------------------------------------------gttgtttctgtcatc--tcatgccagacat---aaagcctttttctttatattcta--aatatatgattttgtggatttcagATACACTTTGAAACTACAGGTCCAGAAATATGGGAGGATACTGTGGGTAGTGTTGACATATTTGTTGCTGGAATTGGGACTGGTGGTACTGTTACAGGCA
|| ||| |||| | | ||| || || || ||| || || || | | | ||| ||||| ||||| ||||||||||| ||||| |||||||||||||| |||||| |||||| |||| || ||||| ||||| |||||||| || ||||| ||||
gttaagtctcaatgcatctcctataagaccttcaccttatcaatcactgttttgaattatttagtgcatcattgaaaatagaaattgcaatataaattaagttacatgttattaagacttatatgcacaaattacagATCCACTTCGAAACTACAGGGCCAGAGATATGGGAGGATACCATGGGTAATGTTGATGTATTGGTAGCTGGGATTGGAACTGGTGGCACCGTTACTGGCA
upper sequence: Vv08s0056g00820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G03630.1 (Arabidopsis thaliana), 3'ss of exon 4
-------------gttgtttctgtcatctcatgccagacataaagcctttttctttatattctaaatatatgattttgtggatt-tcagATACACTTTGAAACTACAGGTCCAGAAATATGGGAGGATACTGTGGGTAGTGTTGACATATTTGTTGCTGGAATTGGGACTGGTGGTACTGTTACAGGCA
| ||| || | | || || || | | | | | | ||| || | | | || | || | | |||| ||||||||||||||||| |||||||| ||||| ||||| |||||| ||| || ||||| ||||| ||||| || |||||||||||||| || || |
gtaagaagttatcgagcttttactcttttaattttggatatgaggtgtgtggcctaataaggtatttttcttatggtttgtttggtaagATCCACTTTGAAACTACAGGACCAGAAATCTGGGAAGATACAATGGGTAATGTCGATATATTCGTTGCCGGAATAGGAACTGGTGGTACTGTAACTGGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccagacataaagcctttttctttatattctaaatatatgattttgtggatttcagATACACTTTGAAACTACAGGTCCAGAAATATGGGAGGATACTGTGGGTAGTGTTGACATATTTGTTGCTGGAATTGGGACTGGTGGTACTGTTACAGGCA
ttctaaa putative branch site (score: 2)
tttttctttatattct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtttctgtcatctcatgccagacataaagcctttttctttatattctaaatatatgattttgtggatttcagATACACTTTGAAACTACAGGTCCAGAAATATGGGAGGATACTGTGGGTAGTGTTGACATATTTGTTGCTGGAATTGGGACTGGTGGTACTGTTACAGGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG