Sequence
atgc intronic sequence ATGC exonic sequencegtaccttataatttatcttactgctgctcatatatattaagttagagtttagatctttaagaaattatcttactgctgccaatgattgagtacccacatgagatttgatcctgctccctctctctctttgatcaacagCAAGCAAGGAAAGCAGCCAAGAAAGCACGCGAAGTTGTGAAAGTTGAAGAGAGAGTGAACAGAGCAGTGATGGTCGCAAACCGAGCAGCAAATGCTGCTA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G17080.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Mapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|124970118|gb|EL043970.1|EL043970EST: TCGACACTGTCCAG CAAGCAAGGAAAGTCAGCCAAGAAAGCACGCGAAGTTGTGAAAGTTGAAGA
genomic: TCGACACTGTCCAGgtaccttata ... tgatcaacagCAAGCAAGGAAAG-CAGCCAAGAAAGCACGCGAAGTTGTGAAAGTTGAAGA
EST:
gi|86087786|gb|DR383545.1|DR383545EST: CTGATTCATCGTTTTCCATCAGTCATTCCAAGGTGGTCGACACTGTCCAG CAAGCAAGGAAAGCAGCCAAGAAAGCACGCGAAGTTGTGAAAGTTGAAGAG
genomic: CTGATTCATCGTTTTCCATCAGTCATTCCAAGGTTGTCGACACTGTCCAGgtaccttata ... tgatcaacagCAAGCAAGGAAAGCAGCCAAGAAAGCACGCGAAGTTGTGAAAGTTGAAGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattgagtacccacatgagatttgatcctgctccctctctctctttgatcaacagCAAGCAAGGAAAGCAGCCAAGAAAGCACGCGAAGTTGTGAAAGTTGAAGAGAGAGTGAACAGAGCAGTGATGGTCGCAAACCGAGCAGCAAATGCTGCTA
ctttgat putative branch site (score: 5)
tttgatcctgctccct CT-rich tract
atttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaccttataatttatcttactgctgctcatatatattaagttagagtttagatctttaagaaattatcttactgctgccaatgattgagtacccacatgagatttgatcctgctccctctctctctttgatcaacagCAAGCAAGGAAAGCAGCCAAGAAAGCACGCGAAGTTGTGAAAGTTGAAGAGAGAGTGAACAGAGCAGTGATGGTCGCAAACCGAGCAGCAAATGCTGCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT