Sequence
atgc intronic sequence ATGC exonic sequence...aaaaatgtgatagttcaatttcatggatatgttttatgaacagtacgatatggaatagaattttatgatttacttatatttttttatgtgaatttggaagGCAAGGAGGGCATTGAGAGCACTTAAAGCATTGGTGAAGTTGCAAGCATTGGTGAGGGGTCACATTGTGAGGAAGCAAACTTCAGATATGCTAAGGCGCA
Basic information
species | Glycine max |
transcript | GLYMA16G32160.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G32160.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G07240.1 (Arabidopsis thaliana), 3'ss of exon 1
aaaaatgtgatagttca-atttcatggatatgttttatgaacagtacgatatggaatagaattttatgattt-acttatattttt--ttatgtgaatttgga---agGCAAGGAGGGCATTGAGAGCACTTAAAGCATTGGTGAAGTTGCAAGCATTGGTGAGGGGTCACATTGTGAGGAAGCAAACTTCAGATATGCTAAGGCGCA
|| | | ||| | ||| || ||| || | |||| | | || | ||| || ||| | ||| | | | | || || | |||| |||||||| ||||||||||| || ||||| |||||| | ||||| ||||||| ||| ||||| || ||||| ||||| | |||||||| | || |
--aatgatagtggttgggaaactatgagta-atttaataaggagtat----tagtgtattactttgtggtttgaattaagtgtgtaaccaagttttctttaattcagGCGAGGAGGGCGTTGAGAGCACTGAAGGCATTAGTGAAGCTTCAAGCGTTGGTGAAGGGACACATAGTAAGGAAACAAACGGCTGATATGCTGCGTCGAA
upper sequence: GLYMA16G32160.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv16s0100g00620.t01 (Vitis vinifera), 3'ss of exon 1
------aaaaatgtgatagttcaatttcatggatatgttttatgaacagtac-gatatggaatag-aattttatgatttacttatatttttttatgtgaatttggaagGCAAGGAGGGCATTGAGAGCACTTAAAGCATTGGTGAAGTTGCAAGCATTGGTGAGGGGTCACATTGTGAGGAAGCAAACTTCAGATATGCTAAGGCGCA
|||| ||| || || | | |||| || |||||||| ||| | || | || |||| | |||| | | ||||| | ||||||||||||| ||| ||||| ||||| |||||||| | || ||| ||||||| || ||||| ||| |||| | || | |||||||||| |||||||
cagatttggaatgagatggtcaaaacttttc-atattagttttgaacagttttgatctctaaggggaaaagggtgatctgattatttgggataatgtgta-------gGCAAGGAGGGCACTGAAGGCACTGAAAGCGCTGGTGAAGCTTCAGGCACTGGTGAGAGGCCACATAGTGCGGAAACGAAGTGCAGATATGCTTAGGCGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgatatggaatagaattttatgatttacttatatttttttatgtgaatttggaagGCAAGGAGGGCATTGAGAGCACTTAAAGCATTGGTGAAGTTGCAAGCATTGGTGAGGGGTCACATTGTGAGGAAGCAAACTTCAGATATGCTAAGGCGCA
aatagaattttatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaatgtgatagttcaatttcatggatatgttttatgaacagtacgatatggaatagaattttatgatttacttatatttttttatgtgaatttggaagGCAAGGAGGGCATTGAGAGCACTTAAAGCATTGGTGAAGTTGCAAGCATTGGTGAGGGGTCACATTGTGAGGAAGCAAACTTCAGATATGCTAAGGCGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - -catggat
- - - - - - - - - - - - - - - - - tatgaac
- - - - - - - - - - - - - - - - - - - - - - - - - - gaatagaa