Sequence
atgc intronic sequence ATGC exonic sequence...aaatccttgttttagccattaagtttaattaattgctcaaatttaatgatatttttctttcaaaattataatgttcttctgtttgctcttgttattacagGTTATAGCCAGCCCAGCTGATCTTGTCAAGGTGAGGATGCAAGCTGATGGCCAAAGGGTGAGTCAAGGTCTTCAACCCTGGTATTCGGGGCCATTTGACG
Basic information
species | Glycine max |
transcript | GLYMA20G33730.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G33730.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0026g02750.t01 (Vitis vinifera), 3'ss of exon 1
--aaatccttgttttagccattaagtttaattaattgctcaaatttaatgatatttttctttcaaaattataatgttcttctgtttgctcttgttattacagGTTATAGCCAGCCCAGCTGATCTTGTCAAGGTGAGGATGCAAGCTGATGGCCAAAGGGTGAGTCAAGGTCTTCAACCCTGGTATTCGGGGCCATTTGACG
||||||| | | | | | || ||| | | || | | || |||| | || | | || | | || | |||| | || ||||| ||||||||||||||||||||||||||||| ||||| | || |||||| ||||| || ||| || |||| || || | ||||| |
ttcttctgttgttttgggtctgatgcatggggaa--gctgagccatgattgtctaattgattcagtggcccattgaatatgcgcttatcccttgtagcatagGTAGTGGCAAGCCCTGCTGATCTTGTCAAGGTGAGGATGCAAGCAGATGGTCGAATGGTGAGCCAAGGCCTCCAATCCAGGTACTCAGGAACTTTTGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgatatttttctttcaaaattataatgttcttctgtttgctcttgttattacagGTTATAGCCAGCCCAGCTGATCTTGTCAAGGTGAGGATGCAAGCTGATGGCCAAAGGGTGAGTCAAGGTCTTCAACCCTGGTATTCGGGGCCATTTGACG
atttaat putative branch site (score: 4)
ctcttgtt putative PPT
atttttctttcaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatccttgttttagccattaagtttaattaattgctcaaatttaatgatatttttctttcaaaattataatgttcttctgtttgctcttgttattacagGTTATAGCCAGCCCAGCTGATCTTGTCAAGGTGAGGATGCAAGCTGATGGCCAAAGGGTGAGTCAAGGTCTTCAACCCTGGTATTCGGGGCCATTTGACG
- - - - - - -agccatt