Sequence
atgc intronic sequence ATGC exonic sequencegtattcagttgctgcctatattgatatgaagtctcatttttaagtggtaataactgattttcaatctttgttcagGTCTCTGAGGCAGGAGAGAATTTCAGCGTGGGACAGAGGCAATTGTTGAGTCTTTCACGTGCGCTGTTACGGAGATCTAAGATACTCGTCCTTGATGAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G34660.1 |
intron # | 23 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G34660.2 (Arabidopsis thaliana), 3'ss of exon 24
lower sequence: GLYMA15G09900.1 (Glycine max), 3'ss of exon 24
-----------------------gtattcagttgctgcctatat-tgatatgaagtctcatttttaag--tggtaataactgattttcaatctttgttcagGTCTCTGAGGCAGGAGAGAATTTCAGCGTGGGACAGAGGCAATTGTTGAGTCTTTCACGTGCGCTGTTACGGAGATCTAAGATACTCGTCCTTGATGAAG
||| | ||| | | | | || | ||| || | | ||| | | | || | | | ||||| ||||||||||| ||||| ||||| || || || |||||| ||||||||||||| || || | || || ||||| || ||| | || ||||| ||||
acgtattatggatatgcttagaagtaca-aattgtcctttgtttgttttacagatatatattgttgaagctagtatttattaatgaaaatgtggtatccagGTATCTGAGGCAGGCGAGAACTTCAGTGTTGGGCAAAGGCAACTGTTGAGTCTTTCCCGGGCTTTATTGCGTAGATCGAAAATATTAGTACTTGACGAAG
upper sequence: AT2G34660.2 (Arabidopsis thaliana), 3'ss of exon 24
lower sequence: GLYMA13G29180.1 (Glycine max), 3'ss of exon 24
----------------------gtattcagt-tgctgcctatattgatatgaagtctcatttttaagt-ggtaataactgattttcaatctt-tgttcagGTCTCTGAGGCAGGAGAGAATTTCAGCGTGGGACAGAGGCAATTGTTGAGTCTTTCACGTGCGCTGTTACGGAGATCTAAGATACTCGTCCTTGATGAAG
|| | | | | ||| | | || || | | | || |||| ||| | | | || | | | | | ||||| ||||||||||| ||||| ||||| || ||||| || ||| ||||||||||||| || || | || || ||||| |||||| | || ||||| ||||
ctattatggatatgctttagaagtgtgaattctcctgtgtttgttttagagatatatattgttgaagtcagtatttattaatgaaaagtgtggtatccagGTATCTGAGGCAGGCGAGAACTTCAGTGTTGGACAAAGACAACTGTTGAGTCTTTCTCGGGCTTTATTGCGTAGATCAAAGATATTAGTACTTGACGAAG
upper sequence: AT2G34660.2 (Arabidopsis thaliana), 3'ss of exon 24
lower sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 24
---------------------gtattcagtt--gctgcct-atattgatatgaagtctca-tttttaagtggtaataactgattttcaatctttgttcagGTCTCTGAGGCAGGAGAGAATTTCAGCGTGGGACAGAGGCAATTGTTGAGTCTTTCACGTGCGCTGTTACGGAGATCTAAGATACTCGTCCTTGATGAAG
|| ||| || | || | | | || ||| || |||||| | | || || | | | ||| |||| || ||||| |||||||||||||| || |||||||||||| | || |||||| | || || || | |||||||| ||||| || || ||||||||||
taggtaaatgggccctgatatgttgtcaattctgttgttttgaactaattcagagtaacaacttttaaatagaaacaattcttccatgtggtatgtgaagGTTTCCGAGGCCGGAGAGAATTTCAGTGTTGGACAGAGGCAACTTTTAAGTCTTGCTCGAGCATTGCTGCGGAGATCAAAGATTCTTGTTCTTGATGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgatatgaagtctcatttttaagtggtaataactgattttcaatctttgttcagGTCTCTGAGGCAGGAGAGAATTTCAGCGTGGGACAGAGGCAATTGTTGAGTCTTTCACGTGCGCTGTTACGGAGATCTAAGATACTCGTCCTTGATGAAG
tctttgttc CT-rich tract
taataactgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattcagttgctgcctatattgatatgaagtctcatttttaagtggtaataactgattttcaatctttgttcagGTCTCTGAGGCAGGAGAGAATTTCAGCGTGGGACAGAGGCAATTGTTGAGTCTTTCACGTGCGCTGTTACGGAGATCTAAGATACTCGTCCTTGATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC