Sequence
atgc intronic sequence ATGC exonic sequencegtgagtctcatccttttcttaatgatatcctgaaatgaagttgtttagttaatatggttttgttgttttagGTTGGACTGGGCATTTTACTGTAAAGATAAATGAAGGTCAGAGCAAAAGGATTATATGCATGGCTCATAAGTGTAATGCTATTTGTGATGAAGATGTTGT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G16090.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G16090.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G136293_T01 (Zea mays), 3'ss of exon 3
--------------gtgagtctcatccttttcttaatga---tatcctgaaatgaagttgtt------tagttaatatggttttgttgttt------tagGTTGGACTGGGCATTTTACTGTAAAGATAAATGAAGGTCAGAGCAAAAGGATTATATGCATGGCTCATAAGTGTAATGCTATTTGTGATGAAGATGTTGT
||| | | || | | ||||| | | ||| | | || || ||| | | ||| ||| |||||||||||| |||| | ||| || || ||||| ||||||||| | | | ||||||||||| ||||| ||||||||||||||||||| | |
catggagaacaaaacagagaatagcctttctatgaatgagcttttgctgcacctagtttcttcctggatagccacttaaacttttctgtccctcacctagGTTGGACTGAATATTTCATTGTGAAAATTAATGAGGGTCAGAGCCGGCGTGTCAGATGCATGGCTCCAAAGTGCAATGCTATTTGTGATGAAGCAATAAT
upper sequence: AT2G16090.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv03s0063g02000.t01 (Vitis vinifera), 3'ss of exon 3
----------------------gtgagtctcatccttttcttaatgatatcctgaaatgaag-ttgtttagttaatatggttttgttg-------ttttagGTTGGACTGGGCATTTTACTGTAAAGATAAATGAAGGTCAGAGCAAAAGGATTATATGCATGGCTCATAAGTGTAATGCTATTTGTGATGAAGATGTTGT
|| ||| || |||| || | | ||| || || || || || || ||||| ||||||||||||| | ||||||| ||| | ||||||||| ||||| |||| | | |||| |||||||| | || || ||||||||||||||||||| | ||||
atcgtataaattctgattttttttgtaatgcatttttcatacaatg-taacaagtgatgcagattcattctttcattcttttatgttgcttttctttttagGTTGGACAGAGCATTTTGTTGTGAGGATAAATGAGGGTCAAAGCAGACGCATTAGGTGCATGGCATACAAATGCAATGCTATTTGTGATGAAGCTATTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttaatgatatcctgaaatgaagttgtttagttaatatggttttgttgttttagGTTGGACTGGGCATTTTACTGTAAAGATAAATGAAGGTCAGAGCAAAAGGATTATATGCATGGCTCATAAGTGTAATGCTATTTGTGATGAAGATGTTGT
ttttgtt CT-rich tract
ttgtttagttaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtctcatccttttcttaatgatatcctgaaatgaagttgtttagttaatatggttttgttgttttagGTTGGACTGGGCATTTTACTGTAAAGATAAATGAAGGTCAGAGCAAAAGGATTATATGCATGGCTCATAAGTGTAATGCTATTTGTGATGAAGATGTTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG