Sequence
atgc intronic sequence ATGC exonic sequencegtaaagtctagaattgaattgtacaatactaaacaattactcgagcaactttattgcttcttaacgtgaggcgtttactttacagCTCCCTTGGAAGGAAATTTCGATTCTACCAGTCCAGTGGCATGCTCTATGTCTTGGATTGTTCGCCTCTATAATAGCTCCTTTTGGTGGCTTCTTTGCCA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G22340.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G22340.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv00s0598g00010.t01 (Vitis vinifera), 3'ss of exon 9
-------------------gtaaagtctagaattgaattgtacaatactaaacaattactcgagcaactttattgcttcttaacgtgaggcgtttactttacagCTCCCTTGGAAGGAAATTTCGATTCTACCAGTCCAGTGGCATGCTCTATGTCTTGGATTGTTCGCCTCTATAATAGCTCCTTTTGGTGGCTTCTTTGCCA
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tgtaaagctattcctctgattaaagcatgggatttaaattttcaatctcaaaaaaaagatc-agtaactctctccctctctcttctcat---tctcttgtgcagTTTCCTTGGAAGGAGGTCTCCATTTTACCAGTTCAGTGGCATGCTTTATGTGTCGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGATTTTTTGCAA
upper sequence: AT4G22340.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv00s0187g00380.t01 (Vitis vinifera), 3'ss of exon 8
-------------------gtaaagtctagaattgaattgtacaatactaaacaattactcgagcaactttattgcttcttaacgtgaggcgtttactttacagCTCCCTTGGAAGGAAATTTCGATTCTACCAGTCCAGTGGCATGCTCTATGTCTTGGATTGTTCGCCTCTATAATAGCTCCTTTTGGTGGCTTCTTTGCCA
||||| | ||| || | | |||| ||| || || || |||| | | || | | | | | | | ||| | ||||||||||| | || ||| ||||||| |||||||||||| ||||| | || ||||| || || |||||||| |||||||| || || ||||| |
tgtaaagctattcctctgattaaagcatgagatttaaattttcaatctcaaaaaaaagatc-agtaactctctccctctctcttctcat---tctcttgtgcagTTTCCTTGGAAGGAGGTCTCCATTTTACCAGTTCAGTGGCATGCTTTATGTGTCGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGATTTTTTGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaacaattactcgagcaactttattgcttcttaacgtgaggcgtttactttacagCTCCCTTGGAAGGAAATTTCGATTCTACCAGTCCAGTGGCATGCTCTATGTCTTGGATTGTTCGCCTCTATAATAGCTCCTTTTGGTGGCTTCTTTGCCA
tttacttt CT-rich tract
aactttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagtctagaattgaattgtacaatactaaacaattactcgagcaactttattgcttcttaacgtgaggcgtttactttacagCTCCCTTGGAAGGAAATTTCGATTCTACCAGTCCAGTGGCATGCTCTATGTCTTGGATTGTTCGCCTCTATAATAGCTCCTTTTGGTGGCTTCTTTGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG