Sequence
atgc intronic sequence ATGC exonic sequencegtgagttcattgtttttgagtgatgtaattgggttgttgttgtttgttgttgatgtgtgtgtgtgtgtattttaagggttgtgtggtttggttcagGTGGTCGGCGAGGGCTATAAAGTCATATGCAATTGGGGAATTGGAAGCGAGGAAGCTCAAGTATCCAAACACGCGAACTAATGCACTTCTCATGGGGATT
Basic information
species | Glycine max |
transcript | GLYMA02G35060.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G35060.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G25370.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgagttcattgtttttgagtgatgtaattgggttgttgttgtttgttgttgatgtgtgtgtgtgtgtattttaagggttgtgtggtttggttcagGTGGTCGGCGAGGGCTATAAAGTCATATGCAATTGGGGAATTGGAAGCGAGGAAGCTCAAGTATCCAAACACGCGAACTAATGCACTTCTCATGGGGATT
|||||| | | | | | ||| |||| |||| | | || || | || ||| || || || || || ||||||||||| |||||||||||| |||||| || |||||||| || ||||||||||||||||||| || | || | || |||||||||| |||
gtgagt---ctcactccaaattacgtatagaatttgtaattgtagagcttatacgtttgaattgttgaggttttttttttaattgtttgattttagATGGTCGGCGAGAGCTATAAAGTCACTTGCAATGGGAGAATTGGAGGCTAGGAAGCTCAAGTATCCAAGTACCGGGACCGAAGCCATTCTCATGGGTATT
upper sequence: GLYMA02G35060.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv16s0022g01840.t01 (Vitis vinifera), 3'ss of exon 2
---gtgagttcattgtttttgagtgatgtaattgggttgttgttgtttgttgttgatgtgtgtgtgtgtgtattttaagggt-tgtgtggtttggttcagGTGGTCGGCGAGGGCTATAAAGTCATATGCAATTGGGGAATTGGAAGCGAGGAAGCTCAAGTATCCAAACACGCGAACTAATGCACTTCTCATGGGGATT
| | | || | | | | || || || || | | |||| | || ||||| || || | | ||| || |||||||| ||||| |||||||||| | | || | |||||||||||| |||||||| ||||| ||||| || |||| | || ||||| ||||| ||
aatataatattgaaaacttatttttctttgttctccttatttttcttggcaactagacagtgttagaacttactttaaatgtatgggaaatggtgtttagATGGTCGGCCAGGGCAATAAAGTCATTTTCTATGGCGGAATTGGAAGCAAGGAAGCTGAAGTACCCAAATACTGGAACCGAGGCTCTTCTAATGGGAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgttgttgatgtgtgtgtgtgtgtattttaagggttgtgtggtttggttcagGTGGTCGGCGAGGGCTATAAAGTCATATGCAATTGGGGAATTGGAAGCGAGGAAGCTCAAGTATCCAAACACGCGAACTAATGCACTTCTCATGGGGATT
tgttgat putative branch site (score: 4)
tgtattttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttcattgtttttgagtgatgtaattgggttgttgttgtttgttgttgatgtgtgtgtgtgtgtattttaagggttgtgtggtttggttcagGTGGTCGGCGAGGGCTATAAAGTCATATGCAATTGGGGAATTGGAAGCGAGGAAGCTCAAGTATCCAAACACGCGAACTAATGCACTTCTCATGGGGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA