Sequence
atgc intronic sequence ATGC exonic sequencegtaaaaaattgacccatatgttttttctgaaagaacttctcctgagattagaatcttaaattaaattgtaacattgcatgcctcttatctgattggcgatagGAAACTTCATATAGAACAGCAGAAGCTTGGGCTGCTGTAGAAAGAACTCTGAATTCTCGATTGCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G79830.4 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G79830.4 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA13G43330.1 (Glycine max), 3'ss of exon 13
gtaaaaaattgacccatatgttttttctgaaagaacttctcctgagattagaatcttaaattaaattgtaacattgcatgcctcttatctgattggcgatagGAAACTTCATATAGAACAGCAGAAGCTTGGGCTGCTGTAGAAAGAACTCTGAATTCTCGATTGCAG
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-------gttaatacacatatgatt-cagagttactcttccgtctgttttttgttttg--ccacatgggatctgtactagactagtattgaccttataacagGAAACAAATGCCAGAAAAGCTGAAGCTTGGGCTGCTGTTGAAAGAACTCTTAATTCTCGACTTCAG
upper sequence: AT1G79830.4 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA15G01980.1 (Glycine max), 3'ss of exon 11
gtaaaaaattgacccatatgttttttctgaaagaacttctcctgagattagaatcttaaattaaattgtaacattgcatgcctcttatctgattggcgatagGAAACTTCATATAGAACAGCAGAAGCTTGGGCTGCTGTAGAAAGAACTCTGAATTCTCGATTGCAG
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-------gttaatacacatgatt---cagaattacttttccttctgttttttgttttg--ctgcatgagatctgtactagactagtattcaccttataacagGAAACAAATGCCAGAAAAGCTGAAGCTTGGGCTGCTGTTGAAAGAACTCTTAATTCTCGACTTCAG
upper sequence: AT1G79830.4 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv16s0098g00540.t01 (Vitis vinifera), 3'ss of exon 10
----------------------------------gtaaaaaattgacccatatgttttttctgaaagaact--tctcctgagat-tagaatcttaaattaaattgtaacattgcatgcctcttatctgattggcgatagGAAACTTCATATAGAACAGCAGAAGCTTGGGCTGCTGTAGAAAGAACTCTGAATTCTCGATTGCAG
| ||| || | | || | | | | | || || || | || | | | ||| | | | | ||| | ||| | |||| || || |||| ||||||||||||||||||||| || ||| ||||||| |||||| | |||
gttgagctttgtttcctatttatttaaagacttgatgaaacttttgagtacactttgctcattggctcgttgatatgttgtgacatatgcacatatgcttggatctcacaatcaactgttatcttct-actggtaacagGAGACAACAGCCAGAAGAGCAGAAGCTTGGGCTGCTGTTGAGAGATCTCTGAACTCTCGACTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagaatcttaaattaaattgtaacattgcatgcctcttatctgattggcgatagGAAACTTCATATAGAACAGCAGAAGCTTGGGCTGCTGTAGAAAGAACTCTGAATTCTCGATTGCAG
atcttaaattaaattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaaaattgacccatatgttttttctgaaagaacttctcctgagattagaatcttaaattaaattgtaacattgcatgcctcttatctgattggcgatagGAAACTTCATATAGAACAGCAGAAGCTTGGGCTGCTGTAGAAAGAACTCTGAATTCTCGATTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC