Sequence
atgc intronic sequence ATGC exonic sequencegtatagcttcttcaaaaatcattttttttttttgtaatataagtttcaaaatctttaacagaatttatttgaaacatataatataaagttacttgataagctagagactttttatatggttataatgacgacagGTATGACACCATTGCATCTTGTGGCAAAGAAAGGTGACGTAGACCTTCTTACAGATTTTCTCCTAGCATGTCCTGAAAGCATTAAAGATGTGAATGTAAA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G54610.1 |
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|19877633|gb|AU238464.1|AU238464EST: AGAGCTAGTCAAGGTTGATCCCAGTCTTGTTCGTATTCGTGGTAGAGGAG GTATGACACCATTGCATCTTGTGGCAAAGAAAGGTGACGTAGACCTTCTTA
genomic: AGAGCTAGTCAAGGTTGATCCCAGTCTTGTTCGTATTCGTGGTAGAGGAGgtatagcttc ... atgacgacagGTATGACACCATTGCATCTTGTGGCAAAGAAAGGTGACGTAGACCTTCTTA
EST:
gi|86057422|gb|DR353179.1|DR353179EST: AGAGCTAGTCAAGGTTGATCCCAGTCTTGTTCGTATTCGTGGTAGAGGAG GCATGACACCATTGMATCTTRTGGCAAAGGAAAGGTGACGTAGACCTTCTT
genomic: AGAGCTAGTCAAGGTTGATCCCAGTCTTGTTCGTATTCGTGGTAGAGGAGgtatagcttc ... atgacgacagGTATGACACCATTGCATCTTGTGGCAAAG-AAAGGTGACGTAGACCTTCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatataaagttacttgataagctagagactttttatatggttataatgacgacagGTATGACACCATTGCATCTTGTGGCAAAGAAAGGTGACGTAGACCTTCTTACAGATTTTCTCCTAGCATGTCCTGAAAGCATTAAAGATGTGAATGTAAA
acttgat putative branch site (score: 5)
tttttatatggttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatagcttcttcaaaaatcattttttttttttgtaatataagtttcaaaatctttaacagaatttatttgaaacatataatataaagttacttgataagctagagactttttatatggttataatgacgacagGTATGACACCATTGCATCTTGTGGCAAAGAAAGGTGACGTAGACCTTCTTACAGATTTTCTCCTAGCATGTCCTGAAAGCATTAAAGATGTGAATGTAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG