Sequence
atgc intronic sequence ATGC exonic sequence...ttcccaactatttttgaacatattcacacgtttttaatggttaattgaatttaattattatgtctaatgatgtgtattaatgaatgaaacatataaacagGAGTTATTACAGATGCACACACAACAACTGTAGGGTGAAAAAGAGAGTGGAGCGACTATCGGAAGATTGTAGAATGGTGATTACTACTTACGAAGGTCGT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G44745.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G44745.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G37930.1 (Glycine max), 3'ss of exon 3
-ttcccaact---atttttgaacatattcacacgtttttaatggttaattgaatttaattattatgtctaatgatgtgtattaatgaatgaaacatataaacagGAGTTATTACAGATGCACACACAACAACTGTAGGGTGAAAAAGAGAGTGGAGCGACTATCGGAAGATTGTAGAATGGTGATTACTACTTACGAAGGTCGT
| ||| | | || || |||| | || || || ||| | | ||| | | | || || | | | | | || | || ||| ||||||||| | ||||| |||||||||||||||||||| ||||| || || |||||||| || |||||| | |||||||| || || || |||||| |
gatgtcaatttaaagattaaaaaatatatctttggagtttctgatttatttactccgatttgtttct-tagtggtcgatctcatttgttgggatatt---gcagAAGTTATTACCGGTGCACCCACAACAACTGTAGGGTGAAGAAGAGGGTTGAACGACTATCAGAGGATTGTCGTATGGTGATAACCACCTATGAAGGTAGA
upper sequence: AT2G44745.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA03G25770.1 (Glycine max), 3'ss of exon 3
ttcccaactatttttgaacatattcacacgtttttaatggttaattgaatttaattatta-tgtctaatgatgtgt--attaat-----gaatgaaacatataaacagGAGTTATTACAGATGCACACACAACAACTGTAGGGTGAAAAAGAGAGTGGAGCGACTATCGGAAGATTGTAGAATGGTGATTACTACTTACGAAGGTCGT
| ||| | || ||| || | ||| || || | ||||| | | ||| | ||| | | ||| | | || |||| | ||| || || ||| | || || || ||||||||||||||||| || ||||| || ||||| || ||||||||| | ||||| || ||||| || ||||| |
--------caaatttaatcacatttgcatagagtaaattcatattttaccctaattttgaatgtttcatgcttttccaattgacatctcaattgtgtgatatgagcagAAGCTACTACCGCTGTACCCATAACAACTGTAGGGTGAAGAAAAGAGTTGAACGACTCTCTGAAGATTGTCGTATGGTAATAACTACCTATGAAGGCAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaatttaattattatgtctaatgatgtgtattaatgaatgaaacatataaacagGAGTTATTACAGATGCACACACAACAACTGTAGGGTGAAAAAGAGAGTGGAGCGACTATCGGAAGATTGTAGAATGGTGATTACTACTTACGAAGGTCGT
tattaat putative branch site (score: 2)
tattaatgaatgaaac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcccaactatttttgaacatattcacacgtttttaatggttaattgaatttaattattatgtctaatgatgtgtattaatgaatgaaacatataaacagGAGTTATTACAGATGCACACACAACAACTGTAGGGTGAAAAAGAGAGTGGAGCGACTATCGGAAGATTGTAGAATGGTGATTACTACTTACGAAGGTCGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- -ccaacta
- - - - - - - - - - -attcaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgaaac