Sequence
atgc intronic sequence ATGC exonic sequence...atttgatatcattttgtttgtaaattattatattttcaagaaaaactgcattttatgtgtctggattttttatcatgcatcattgttgacaattttgcagGAATTACTTTTCTCATACAATATTGCCGTGGATAGGTCAAATGAAGTAAAAAGGACTCATGGAAAATCTGCTTCAAGCGTTGGTCTTCAGTTTCCTGAGG
Basic information
species | Glycine max |
transcript | GLYMA19G25090.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G25090.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0019g03660.t01 (Vitis vinifera), 3'ss of exon 2
-----atttgatatcattttgtttgtaaattattatattttcaagaaaaactgcattttatgtgtctggattttttatcatgcatcattgttgacaattttgcagGAATTACTTTTCTCATACAATATTGCCGTGGATAGGTCAAATGAAGTAAAAAGGACTCATGGAAAATCTGCTTCAAGCGTTGGTCTTCAGTTTCCTGAGG
| | | | | ||||| || ||||| |||||| || | || |||| | || || | || || || ||||||| ||||| |||| || || ||||| |||||||| ||| ||||| | || || | || |||||||||||||||||| || ||||||||| |||| ||||
taataaatagtttaagcgatttttgtgaaaggaaatattc-caagaaccggtg-gccacctcaaccttaatttctaattttga---actgatggtggttgtgcagGAGTTACTGCTCTCTTATAACATTGCTGTGGATAGATCAGATGAAATGAAGAGAATTCTTGGAAAATCTGCTTCAAGTGTGGGTCTTCAGCTTCCAGAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgcattttatgtgtctggattttttatcatgcatcattgttgacaattttgcagGAATTACTTTTCTCATACAATATTGCCGTGGATAGGTCAAATGAAGTAAAAAGGACTCATGGAAAATCTGCTTCAAGCGTTGGTCTTCAGTTTCCTGAGG
tgttgac putative branch site (score: 3)
attttttatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttgatatcattttgtttgtaaattattatattttcaagaaaaactgcattttatgtgtctggattttttatcatgcatcattgttgacaattttgcagGAATTACTTTTCTCATACAATATTGCCGTGGATAGGTCAAATGAAGTAAAAAGGACTCATGGAAAATCTGCTTCAAGCGTTGGTCTTCAGTTTCCTGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - tgtttgt
- - - - - - - - - - - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - tgcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgcatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgac