Sequence
atgc intronic sequence ATGC exonic sequencegtaagaaggggctaacactgcactgtccggagttataacccaccttttccttaacatatatcttcatgtaaattgtattttgcctcttgcagAGTTCCACTTTCCAATGGAGGTTCTTTGGTGATTGAACAAACTGAGGCGTTAGTCTCTATTGATGTGAACGGAGGACATGGAATGTTTGGTCAGGGTAAT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G04270.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G04270.4 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA14G36910.1 (Glycine max), 3'ss of exon 9
-------------gtaagaaggggctaacactgcactgtccggagttataacccaccttttccttaacatatatcttcatgtaaattgtattttgcctcttgcagAGTTCCACTTTCCAATGGAGGTTCTTTGGTGATTGAACAAACTGAGGCGTTAGTCTCTATTGATGTGAACGGAGGACATGGAATGTTTGGTCAGGGTAAT
||| | | | ||| || | ||| | ||| | | ||| ||| | || | || | || || ||||||||| | |||||||||||||| | ||||||||||||||||| |||| ||||||||||| || ||||| || || ||| ||||||| || |||
cccgatattttgtataaaatgtcaattgatctggccttcctggacacttggtattaaaattcttaacttgataactttct-----ttatgttgatcaatttatagGGTTCCACTTGCTAATGGAGGTTCTTTAATCATTGAACAAACTGAGGCACTAGTTTCTATTGATGTAAATGGAGGGCACGGGATGCTTGGTCATGGAAAT
upper sequence: AT2G04270.4 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA02G38840.1 (Glycine max), 3'ss of exon 8
-------------gtaagaaggggctaacactgcactgtccggagttataacccaccttttccttaacatatatcttcatgtaaattgtattttgcctcttgcagAGTTCCACTTTCCAATGGAGGTTCTTTGGTGATTGAACAAACTGAGGCGTTAGTCTCTATTGATGTGAACGGAGGACATGGAATGTTTGGTCAGGGTAAT
||||| | | ||| || | ||| || | | | | ||| ||| | || | | | | || ||||||||| | |||||||||||| | | ||||||||||| ||||| ||||| || |||||||| || |||||||| || ||| ||||||| || |||
cttgatattttgtataagatgtcaattgatctggccttcctggacacttagtattaaaatacttaacttaatagctttct-----ttatgctgatcaatctatagGGTTCCACTTGCTAATGGAGGTTCTCTAATCATTGAACAAACCGAGGCATTAGTTTCCATTGATGTAAATGGAGGACACGGGATGCTTGGTCATGGAAAT
upper sequence: AT2G04270.4 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv12s0057g01320.t01 (Vitis vinifera), 3'ss of exon 8
---------gtaagaag-gggctaacactgcactgtccggagttataacccaccttttccttaacatatatcttcatgtaaattg--tattttgcctcttgcagAGTTCCACTTTCCAATGGAGGTTCTTTGGTGATTGAACAAACTGAGGCGTTAGTCTCTATTGATGTGAACGGAGGACATGGAATGTTTGGTCAGGGTAAT
|| || | || | || || | | ||| ||| ||||| | ||| || || ||| || | | |||||| ||| || ||||| | |||||||||||||| |||||||||||||||||||| |||||||||||||||||||| || || || || ||| |||| | || | |
actcccatcttacaaattagacttagac--catttcttgatgttttaatt--ttagaatcttaaggtctatttttattgaaactgatcacatctcctcttacagGGTCCCACTCCCTAATGGAGGTTCTTTAGTGATTGAACAAACTGAGGCATTAGTCTCTATTGATGTGAATGGTGGGCACGGGATGCTTGGCAATGGCACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acccaccttttccttaacatatatcttcatgtaaattgtattttgcctcttgcagAGTTCCACTTTCCAATGGAGGTTCTTTGGTGATTGAACAAACTGAGGCGTTAGTCTCTATTGATGTGAACGGAGGACATGGAATGTTTGGTCAGGGTAAT
ttttgcctctt CT-rich tract
atgtaaattgtatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaaggggctaacactgcactgtccggagttataacccaccttttccttaacatatatcttcatgtaaattgtattttgcctcttgcagAGTTCCACTTTCCAATGGAGGTTCTTTGGTGATTGAACAAACTGAGGCGTTAGTCTCTATTGATGTGAACGGAGGACATGGAATGTTTGGTCAGGGTAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA