Sequence
atgc intronic sequence ATGC exonic sequence...tagtagaaattggtgatttcatttactaaagataagacattgggtgagtgtttataactgctaatgttcgtgtcttttggataatctcatcttttgacagGAGAGAGACACGAGAACCGAAATGGTATCTCCTCCCCATTTAAACTTCACGGAAGAGGTCACAAGTGCTTCCTCCTTCTCTAGGCAGTTAGCAGAGCAAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G18580.1 |
intron # | 1 |
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|116451418|gb|EG494010.1|EG494010EST: AGATCCATCCCAGCTTTTACTT GAGAGAGACACGAGAACCGAAATGGTATCTCCTCCCCATTTAAACTTCACG
genomic: AGATCCATCCCAGCTTTTACTTgtatgtcttt ... cttttgacagGAGAGAGACACGAGAACCGAAATGGTATCTCCTCCCCATTTAAACTTCACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagtgtttataactgctaatgttcgtgtcttttggataatctcatcttttgacagGAGAGAGACACGAGAACCGAAATGGTATCTCCTCCCCATTTAAACTTCACGGAAGAGGTCACAAGTGCTTCCTCCTTCTCTAGGCAGTTAGCAGAGCAAA
tgctaat putative branch site (score: 2)
tctcatctttt putative PPT
tttataact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagtagaaattggtgatttcatttactaaagataagacattgggtgagtgtttataactgctaatgttcgtgtcttttggataatctcatcttttgacagGAGAGAGACACGAGAACCGAAATGGTATCTCCTCCCCATTTAAACTTCACGGAAGAGGTCACAAGTGCTTCCTCCTTCTCTAGGCAGTTAGCAGAGCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- gtagaaa
- - - - - - - - - - - - actaaag
- - - - - - - - - - - - - - - - -aagacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgctaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatctca