Sequence
atgc intronic sequence ATGC exonic sequencegtaataaaaaataccctataacaagttcagtagttatttacattttgacatttagtgcttacattatatgcataaatataatgcagCAATATCCATATGACATTCCTACTGAAGCCTTTTCATTTGAGATTTTCAAACAAGCCTTTGCTGCTATTCAGTCTTGTGTGGTGCATTTACAG
Basic information
species | Glycine max |
transcript | GLYMA05G07100.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G07100.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os12g13460.1 (Oryza sativa), 3'ss of exon 4
gtaataaaaaat-accctataacaagttcagtagttatttacattttg--acatttagtgcttacattatatgcat-aaatataatgcagCAATATCCATATGACATTCCTACTGAAGCCTTTTCATTTGAGATTTTCAAACAAGCCTTTGCTGCTATTCAGTCTTGTGTGGTGCATTTACAG
|| | | ||| | || | |||| || | ||| || || | ||||| | | || | | |||||||||||||| | |||||| ||||| || || ||| |||||||||| ||||| ||||| |||| || | |||||||| ||||| ||||| |||
gtgctttcttttgaccttccaaaatgttc--ctgtctctgggattctgttgcactagctgcttgttgttctcatgtcaactgttatgcagCAATATCCTTTTGACATACCTACCGAGGCTTTTCCATTTGAGATCTTCAAGCAAGCTTTTGTCGCAGTACAGTCTTGCGTGGTCCATTTGCAG
upper sequence: GLYMA05G07100.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G14260.2 (Arabidopsis thaliana), 3'ss of exon 4
--------------gtaataaaaaataccctataacaagttca---gtagttatttacattttgacatttagtgcttacattatatgcataaatataatgcagCAATATCCATATGACATTCCTACTGAAGCCTTTTCATTTGAGATTTTCAAACAAGCCTTTGCTGCTATTCAGTCTTGTGTGGTGCATTTACAG
|| | | | || || | | | || | | | | | | |||||| || | || | | |||||||||| |||| |||||| || |||||||| ||||||||||||||||||||||| || |||| ||| |||||||| |||||||||||||||||
gtgtttggctacctacgatttcggcttcttcttgtcattttaatatatggaatgctaaacatcggcctc--ggacttacaccat-tttatttgtgttttgcagCAATACCCATTTGACATACCAACTGAAGCTTTTTCATTTGAGATTTTCAAACAGGCATTTGTTGCCATTCAGTCATGTGTGGTGCATTTACAA
upper sequence: GLYMA05G07100.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0171g00310.t01 (Vitis vinifera), 3'ss of exon 4
--------------------------------------------------------------------------------gtaataaaaaataccct-ataacaa-gttcagt--agttatttacattttgacatttagtgcttacattatatgcataaata--taatgcagCAATATCCATATGACATTCCTACTGAAGCCTTTTCATTTGAGATTTTCAAACAAGCCTTTGCTGCTATTCAGTCTTGTGTGGTGCATTTACAG
|| | | || | | || ||| |||| | || |||| || | | || || || | | ||| | | |||||||||| |||||||| ||||||||||| |||||| |||||||||||||||||||||| |||| ||| |||||||||||||||||||||||||||
gtcattctcttacacatctgttgttgaaactagataatatatgccttccccttttgttaatttaaatatattgctgtttcctattgggagattctttgattacattgttcttttaggtgatttgttaaatgtagatgaatgtgactatgattttcttaatttctttttgcagCAATACCCATATGATATTCCTACTGAGGCCTTTCCATTTGAGATTTTCAAACAAGCTTTTGTTGCAATTCAGTCTTGTGTGGTGCATTTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttatttacattttgacatttagtgcttacattatatgcataaatataatgcagCAATATCCATATGACATTCCTACTGAAGCCTTTTCATTTGAGATTTTCAAACAAGCCTTTGCTGCTATTCAGTCTTGTGTGGTGCATTTACAG
tgcttac putative branch site (score: 2)
ttacattatatgcata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaataaaaaataccctataacaagttcagtagttatttacattttgacatttagtgcttacattatatgcataaatataatgcagCAATATCCATATGACATTCCTACTGAAGCCTTTTCATTTGAGATTTTCAAACAAGCCTTTGCTGCTATTCAGTCTTGTGTGGTGCATTTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT