Sequence
atgc intronic sequence ATGC exonic sequencegtatataatagctgtctagtatcatgcttactgatttggtgtaacctataccattttgtgctaacatgttcactatcctaacagAATGACTATTCGGAGCAATGGGCTTTGGCATGTGGAGAAATCCTTCGCATTTTGACTCATTACAACCGTCCCATTTATAAAACTGAGCAGCAAAATGGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G22770.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G22770.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA10G36600.1 (Glycine max), 3'ss of exon 5
--------------------------------------------------------------------------------------------------------gtatataatagctgtctagtatca-tgcttactgatttggtgtaacctataccattttgtgctaacatgttcactatcctaacagAATGACTATTCGGAGCAATGGGCTTTGGCATGTGGAGAAATCCTTCGCATTTTGACTCATTACAACCGTCCCATTTATAAAACTGAGCAGCAAAATGGAG
||||| | | | ||| ||| | ||| | || || || || ||||| | |||| | || | |||||||| || |||||| |||||||| | |||||||| ||||| | |||||||| ||||||||||| || || ||||| ||||| || ||| ||| |
gtataattataattccctgcccgatattttgattttattcatatataattcaatttcatagctaaaatgtctcttgctttcttctttcagtttctatactgatttaatatagcaattattcagtttcagtatctacaaa---ggggt--tctctattattttcatttcttatgtgtataattttg-cagAATGAATACTCGGAGGAATGGGCTCTAGCATGTGGTGAAATTTTGCGCATTTTAACTCATTACAATCGCCCTATTTACAAAACAGAAAGACAATCTGGTG
upper sequence: AT1G22770.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA09G07240.1 (Glycine max), 3'ss of exon 5
----------gtatataatagctgtctagtatcatgcttactgatttggtgtaacctataccattttgtgctaacatgttca----------ctatcctaacagAATGACTATTCGGAGCAATGGGCTTTGGCATGTGGAGAAATCCTTCGCATTTTGACTCATTACAACCGTCCCATTTATAAAACTGAGCAGCAAAATGGAG
|| | |||| | | | ||||| ||| | |||| | ||| |||| || ||| | |||| ||| | ||||||||| ||||| || ||||||||| |||||||||| ||||| | || ||||| ||||||||||| || ||||| || |||| || |||| || | |
atgactattggtttctaattgat-ttaagtatatcatttatt---ctggtatctgctaagatatttcatggcaaccttttcatttattctgtctaattttacagAATGAATATTCAGAACAATGGGCTATGGCATGTGGTGAAATTTTGCGTATTTTAACTCATTACAATCGCCCCATATACAAAATGGAAAGGCAATATTGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgatttggtgtaacctataccattttgtgctaacatgttcactatcctaacagAATGACTATTCGGAGCAATGGGCTTTGGCATGTGGAGAAATCCTTCGCATTTTGACTCATTACAACCGTCCCATTTATAAAACTGAGCAGCAAAATGGAG
tgctaac putative branch site (score: 1)
ctatcct putative PPT
attttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatataatagctgtctagtatcatgcttactgatttggtgtaacctataccattttgtgctaacatgttcactatcctaacagAATGACTATTCGGAGCAATGGGCTTTGGCATGTGGAGAAATCCTTCGCATTTTGACTCATTACAACCGTCCCATTTATAAAACTGAGCAGCAAAATGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG