Sequence
atgc intronic sequence ATGC exonic sequencegtatcatctaaaaactcttttgcttctcagcacctctctcttaattcaccccatagtatttaacattgatgattcttccatttatccttcatgggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGAAGAGAATATAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G45030.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: LOC_Os03g36780.1 (Oryza sativa), 3'ss of exon 12
gtatcatctaaaaactcttttgcttctcagcacctctctcttaattcaccccatagtatttaacattgatgattcttccatttatccttcatgggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGAAGAGAATATAAG
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---------------------gtttgttttgttatctgttgtatttttct-----aaatctatcatttgtgaactttaaagtgtaaattttgatcgcagACAATTATTTCTGGGATGGGTGAGCTGCATTTGGATATCTATGTTGAACGCATCAGGAGAGAGTACAAG
upper sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 12
gtatcatctaaaaactcttttgcttctcagcacctctctcttaattcaccccatagtatttaacattgatgattcttccatttatccttcatgggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGAAGAGAATATAAG
||| |||| | | | |||||| | | ||| |||| | | ||| | | | | | | | ||| |||| || |||||||| ||||||||| ||||||| || ||||||||||||||||| | ||||| ||||||
------------gttatctttaattctttg-atcattctctttttaagtacaatattattgttcgt--atgttgatattagtaaacttctgtggt-tagACAATCATTTCTGGAATGGGGGAACTGCATTTAGATATCTATGTTGAACGCATTAGGAGAGAGTATAAG
upper sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: GLYMA01G14800.1 (Glycine max), 3'ss of exon 7
gtatcatctaaaaactcttttgcttctcagcacctctctcttaattcaccccatagtatt-taacattgatgattcttccatttatccttcatg-ggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGAAGAGAATATAAG
|| || | | | | | |||| | |||| | |||| | | | ||| | || || || |||| || |||||||| ||||||||| ||||||| || ||||||||||||||||| | ||||| ||||||
----------------------gttatctttaatttttttatcattctcttttaagtaaaacattattgtttgtatcttgattagtaatttctgtggttagACAATCATTTCTGGAATGGGGGAACTGCATTTAGATATCTATGTTGAACGCATTAGGAGAGAGTATAAG
upper sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 12
lower sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 12
gtatcatctaaaaactcttttgcttctcagcacctctctcttaattcaccccatagtatttaacattgatgattcttccatttatccttcatgggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGAAGAGAATATAAG
|| | || || | | | ||| || | | || || | |||| ||| || | || ||| | | ||||| ||||||||||| ||||| || ||||||||||||| || ||||||||||| || || || ||||||
gtttaatttatga---catgcatttcacacattccttagaggaagaagttttatcatgcctaaccatgaca-----tcaaa--atgctttcttgtgcagACAATTATTTCTGGAATGGGAGAGCTGCATTTGGACATTTACGTTGAACGCATTCGGAGGGAGTATAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaccccatagtatttaacattgatgattcttccatttatccttcatgggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGAAGAGAATATAAG
ttcttccatttatcct CT-rich tract
atagtatttaacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcatctaaaaactcttttgcttctcagcacctctctcttaattcaccccatagtatttaacattgatgattcttccatttatccttcatgggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGAAGAGAATATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA