Sequence
atgc intronic sequence ATGC exonic sequence...taaaatttatctgggcttccttgcaccgttctaaggcccgttagatgtttggtgcacacgtgtatacggtacaccttacaaaatcgtttgttctgtgcagGTTCCGACGATAAATCGATTCCATTGGCACGAAGCGCCGCTGACAAACTCCTCGGCGGCCTCTTGCCCGAAGGATTCGACGAGAAATCATGTCGCAGCAG
Basic information
species | Oryza sativa |
transcript | LOC_Os02g52630.1 |
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|88364936|gb|CI616355.1|CI616355EST: CGGGCGGCGCCCCGCCGTCTGGATCGCCGCCACCAAGGCCCTGTGTCGAG GTTCCGACGATAAATCGATTCCATTGGCACGAAGCGCCGCTGACAAACTCC
genomic: CGGGCGGCGCCCCGCCGTCTGGATCGCCGCCACCAAGGCCCTGCGTCGAGgtgagtgttt ... ttctgtgcagGTTCCGACGATAAATCGATTCCATTGGCACGAAGCGCCGCTGACAAACTCC
EST:
gi|88423903|gb|CI609934.1|CI609934EST: CGGGCGACGCCCCGCCGTCTGGATCGCCGCCACCAAGGCCCTGCGTCGAG GTTCCGACGATAAATCGATTCCATTGGCACGAAGCGCCGCTGACAAACTCC
genomic: CGGGCGGCGCCCCGCCGTCTGGATCGCCGCCACCAAGGCCCTGCGTCGAGgtgagtgttt ... ttctgtgcagGTTCCGACGATAAATCGATTCCATTGGCACGAAGCGCCGCTGACAAACTCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttggtgcacacgtgtatacggtacaccttacaaaatcgtttgttctgtgcagGTTCCGACGATAAATCGATTCCATTGGCACGAAGCGCCGCTGACAAACTCCTCGGCGGCCTCTTGCCCGAAGGATTCGACGAGAAATCATGTCGCAGCAG
accttac putative branch site (score: 3)
tttgttct putative PPT
ttacaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaaatttatctgggcttccttgcaccgttctaaggcccgttagatgtttggtgcacacgtgtatacggtacaccttacaaaatcgtttgttctgtgcagGTTCCGACGATAAATCGATTCCATTGGCACGAAGCGCCGCTGACAAACTCCTCGGCGGCCTCTTGCCCGAAGGATTCGACGAGAAATCATGTCGCAGCAG
- - - - - - - - - ccttgca
- - - - - - - - - - - - - - - - - - - - - - - - -tggtgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tacaaaa