Sequence
atgc intronic sequence ATGC exonic sequence...atatctactttgttgtgatgtttaaaatgtgttgaaactggaaggatgtgattagataagtggtggtgattttttcaaaacaattttgtgtgtgtgacagATTGTTTGCTGTGGTGGATGATATGTTCTGCATATTCCAAGGACATATAGAGAACGTTCCAATTCTTAAGCAACAATATGGACTAACCAAAACAGCTACA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G22850.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G22850.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv14s0036g00050.t01 (Vitis vinifera), 3'ss of exon 2
atatctactttgttgtgatgtttaaaatgtgttga--aactggaaggatgtgattagataa-gtggtggtgattttttcaaaacaattttgtgtgtgt--gacagATTGTTTGCTGTGGTGGATGATATGTTCTGCATATTCCAAGGACATATAGAGAACGTTCCAATTCTTAAGCAACAATATGGACTAACCAAAACAGCTACA
| |||||| | || || | ||| | | | | | | | ||| | || | | || || | | | | | |||||||||||| || ||||||||||| |||||| | || ||||||||||| ||||| ||| | ||||||||||||| ||||| ||| ||||||| | |
-----tttcttgttgctttcttcccaacttaccacttgactttatccctcttttcacttggcatatcggttgctgattgtgatctatcttctctttttttgtcagATTGTTTGCAGTTGTGGATGATATATTCTGCTTGTTTCAAGGACATATTGAGAATGTTGCTCTTCTTAAGCAACAGTATGGGTTAAACAAAACAACAAAT
upper sequence: AT3G22850.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv05s0020g04160.t01 (Vitis vinifera), 3'ss of exon 1
atatctactttgttgtgatgtttaaaatgtgttga--aactggaaggatgtgattagataa-gtggtggtgattttttcaaaacaattt--tgtgtgtgtgacagATTGTTTGCTGTGGTGGATGATATGTTCTGCATATTCCAAGGACATATAGAGAACGTTCCAATTCTTAAGCAACAATATGGACTAACCAAAACAGCTACA
| |||||| | || || | ||| | | | | | | | ||| | || | | || | | | | | || |||||||||||| || ||||||||||| |||||| | || ||||||||||| ||||| ||| | ||||||||||||| ||||| ||| ||||||||| |
-----tttcttgttgctttcttcccaacttaccacttgactttatccctcttttcacttggcatatcggttgctgattgtgatctatctcctctttttttgtcagATTGTTTGCAGTTGTGGATGATATATTCTGCTTGTTTCAAGGACATATTGAGAATGTTGCTCTTCTTAAGCAACAGTATGGGTTAAACAAAACAGCAAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtgattagataagtggtggtgattttttcaaaacaattttgtgtgtgtgacagATTGTTTGCTGTGGTGGATGATATGTTCTGCATATTCCAAGGACATATAGAGAACGTTCCAATTCTTAAGCAACAATATGGACTAACCAAAACAGCTACA
tgattttttcaaaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatctactttgttgtgatgtttaaaatgtgttgaaactggaaggatgtgattagataagtggtggtgattttttcaaaacaattttgtgtgtgtgacagATTGTTTGCTGTGGTGGATGATATGTTCTGCATATTCCAAGGACATATAGAGAACGTTCCAATTCTTAAGCAACAATATGGACTAACCAAAACAGCTACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - -ttgaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaacaa