Sequence
atgc intronic sequence ATGC exonic sequence...atattatatgatggaatcatatctgttcattgctcatctcaactctattctgtataattttctgggggaagttgtaactaaagttcatttgtctgtgcagATGAGCTTGCTGGGATGATGCCTAGTTAACTCACTCGATGATGGAGGTGGAACTTTACTTACTTCTGAACGTTGAAAACAGTGACTTGTCATTTCTCACT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G54680.1 |
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|86075369|gb|DR371126.1|DR371126EST: ATCCGTACGGATCCGAGAATAACCGGAAACCGACCCGGCACCTCCGGATG ATGAGCTTGCTGGGATGATGCCTAGTTAACTCACTCGATGATGGAGGTGGA
genomic: ATCCGTACGGATCCGAGAATAACCGGAAACCGACCCGGCACCTCCGGATGgtatgttcat ... gtctgtgcagATGAGCTTGCTGGGATGATGCCTAGTTAACTCACTCGATGATGGAGGTGGA
EST:
gi|125086005|gb|EL145636.1|EL145636EST: ATCCGTACGGATCCGAGAATAACCGGAAACCGACCCGGCACCTCCGGATG ATGAGCTTGCTGGGATGATGCCTAGTTAACT
genomic: ATCCGTACGGATCCGAGAATAACCGGAAACCGACCCGGCACCTCCGGATGgtatgttcat ... gtctgtgcagATGAGCTTGCTGGGATGATGCCTAGTTAACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattctgtataattttctgggggaagttgtaactaaagttcatttgtctgtgcagATGAGCTTGCTGGGATGATGCCTAGTTAACTCACTCGATGATGGAGGTGGAACTTTACTTACTTCTGAACGTTGAAAACAGTGACTTGTCATTTCTCACT
aactaaa putative branch site (score: 2)
tttgtct putative PPT
tgtataatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atattatatgatggaatcatatctgttcattgctcatctcaactctattctgtataattttctgggggaagttgtaactaaagttcatttgtctgtgcagATGAGCTTGCTGGGATGATGCCTAGTTAACTCACTCGATGATGGAGGTGGAACTTTACTTACTTCTGAACGTTGAAAACAGTGACTTGTCATTTCTCACT
- - - - - - - aatcata
- - - - - - - - - - - ctgttca
- - - - - - - - - - - - - - - - - -atctcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aactaaa