Sequence
atgc intronic sequence ATGC exonic sequence...aatgatagtggttgggaaactatgagtaatttaataaggagtattagtgtattactttgtggtttgaattaagtgtgtaaccaagttttctttaattcagGCGAGGAGGGCGTTGAGAGCACTGAAGGCATTAGTGAAGCTTCAAGCGTTGGTGAAGGGACACATAGTAAGGAAACAAACGGCTGATATGCTGCGTCGAA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G07240.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G07240.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA16G32160.1 (Glycine max), 3'ss of exon 1
--aatgatagtggttgggaaactatgagta-atttaataaggagtat----tagtgtattactttgtggtttgaattaagtgtgtaaccaagttttctttaattcagGCGAGGAGGGCGTTGAGAGCACTGAAGGCATTAGTGAAGCTTCAAGCGTTGGTGAAGGGACACATAGTAAGGAAACAAACGGCTGATATGCTGCGTCGAA
|| | | ||| | ||| || ||| || | |||| | | || | ||| || ||| | ||| | | | | || || | |||| |||||||| ||||||||||| || ||||| |||||| | ||||| ||||||| ||| ||||| || ||||| ||||| | |||||||| | || |
aaaaatgtgatagttca-atttcatggatatgttttatgaacagtacgatatggaatagaattttatgattt-acttatattttt--ttatgtgaatttgga---agGCAAGGAGGGCATTGAGAGCACTTAAAGCATTGGTGAAGTTGCAAGCATTGGTGAGGGGTCACATTGTGAGGAAGCAAACTTCAGATATGCTAAGGCGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtgtattactttgtggtttgaattaagtgtgtaaccaagttttctttaattcagGCGAGGAGGGCGTTGAGAGCACTGAAGGCATTAGTGAAGCTTCAAGCGTTGGTGAAGGGACACATAGTAAGGAAACAAACGGCTGATATGCTGCGTCGAA
ttttcttt CT-rich tract
aagttttctttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgatagtggttgggaaactatgagtaatttaataaggagtattagtgtattactttgtggtttgaattaagtgtgtaaccaagttttctttaattcagGCGAGGAGGGCGTTGAGAGCACTGAAGGCATTAGTGAAGCTTCAAGCGTTGGTGAAGGGACACATAGTAAGGAAACAAACGGCTGATATGCTGCGTCGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - -gaaacta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggtttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaccaag