Sequence
atgc intronic sequence ATGC exonic sequencegtgagtggccttttttcattcattagtactcattgtgtgcacaatggtgtggtgaaagcaaatttgctactgatgttctgaagctaatctctattttttttctatattctgctgtttagGTTCCAAAGCTTGCCTCTGCTGCTGAGTACTTCTTCAAAAGGGGTGTGCAAGGAAAACAGTTTCGTTCAACT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G34630.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G34630.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA17G18160.1 (Glycine max), 3'ss of exon 5
----gtgagtggccttttttcattcattagtactcattgtgtgcacaatggtgtggtgaaagcaaatttgctactgatgttctgaagctaatctcta-ttttttttctatattctgctgtttagGTTCCAAAGCTTGCCTCTGCTGCTGAGTACTTCTTCAAAAGGGGTGTGCAAGGAAAACAGTTTCGTTCAACT
|| || ||| || | | || | |||| | ||| || ||| |||| || || | |||| | | || ||| || ||||||||||||||||||| |||||||| ||||||||||||| ||| ||| |||||||| ||||| | ||
gtatccgattgttcttcatttactttctaatgtgtattgaatcaacagctcagtcctgagtc---attttctgcttagaaatcaggtttaattcatggtgagaattgggcattatgtaac--agGTTCCAAAGCTTGCCTCGGCTGCTGAATACTTCTTCAAAATGGGAGTGGAAGGAAAAAGATTTCGCCCTACA
upper sequence: AT2G34630.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA05G21570.1 (Glycine max), 3'ss of exon 3
----gtgagtggccttttttcattcattagtactcattgtgtgcacaatggtgtggtgaaagcaaatttgctactgatgttctgaagctaatctctatttttt-ttctatattctgctgtttagGTTCCAAAGCTTGCCTCTGCTGCTGAGTACTTCTTCAAAAGGGGTGTGCAAGGAAAACAGTTTCGTTCAACT
||| || ||| || | | |||| || || | | || || | ||| ||||| | ||||| | | || |||| || ||||||| ||||||||||| ||||| || ||||||||||||| || ||| |||||||| ||||| | ||
gtatctgattgttcttcatttactttctagtgtatgcattgaatcaaaagatctgtcctgagtcatttt-ctacttagaaatatggtctaattcatggtgagaattgggtattatgtaac--agGTTCCTAAGCTTGCCTCAGCTGCCGAATACTTCTTCAAAATTGGAGTGGAAGGAAAAAGATTTCGCCCTACA
upper sequence: AT2G34630.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv15s0024g00850.t01 (Vitis vinifera), 3'ss of exon 3
gtgagtggccttttttcattcattagtactcattgtgtgcacaatggtgtggtga--aagcaaattt-----gctactgatgttctgaagctaatctctattt--------tttttctatattctgctgtttagGTTCCAAAGCTTGCCTCTGCTGCTGAGTACTTCTTCAAAAGGGGTGTGCAAGGAAAACAGTTTCGTTCAACT
|| | || | | | || || || | ||||| | || | ||| || | | | | | | || || || | ||| | || | || | |||| || ||||||||||| |||||||||||||||||||| | ||| ||| |||||||| ||| ||| | ||
gtatctaattgttctctctccctttatatattctgaaaccccaatgctttgaaagttgaataaacttcaaggaattttaaaatgtcagatttgatttcaatatgataaagatttaggtctaatttgtcatccagGTCCCTAAGCTTGCCTCGGCTGCTGAGTACTTCTTCAAGATGGGGGTGGAAGGAAAAAGGTTCCGTCCCACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctactgatgttctgaagctaatctctattttttttctatattctgctgtttagGTTCCAAAGCTTGCCTCTGCTGCTGAGTACTTCTTCAAAAGGGGTGTGCAAGGAAAACAGTTTCGTTCAACT
tctctattttttttct CT-rich tract
taatctctattttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtggccttttttcattcattagtactcattgtgtgcacaatggtgtggtgaaagcaaatttgctactgatgttctgaagctaatctctattttttttctatattctgctgtttagGTTCCAAAGCTTGCCTCTGCTGCTGAGTACTTCTTCAAAAGGGGTGTGCAAGGAAAACAGTTTCGTTCAACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA