Sequence
atgc intronic sequence ATGC exonic sequence...ctgtttttgtttagtttggatgttcacagctatgctgtacagtacttgtgagcttgtttacagttaattggatgtataaccatttcttgtattctggcagGAGAAGTTCCAGAAGTATCTTTCCGGTGAAGGCCAGAGGCTCAGGCAGCAGGACAGAGCGGCGATGGGCAAGAACTAGCGAAAGACCTCAGGCAATTTCG
Basic information
species | Oryza sativa |
transcript | LOC_Os06g03514.2 |
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|88202570|gb|CI200925.1|CI200925EST: GCGTGCTCCACCACCTCCGCCGTCTCTCCGTTGACATCCCCGGCCGCCAG GAGAAGTTCCAGAAGTATCTTTCCGGTGAAGGCCAGAGGCTCAGGCAGCAG
genomic: GCGTGCTCCACCACCTCCGCCGTCTCTCCGTTGACATCCCCGGCCGCCAGgtcccacctc ... attctggcagGAGAAGTTCCAGAAGTATCTTTCCGGTGAAGGCCAGAGGCTCAGGCAGCAG
EST:
gi|86541987|gb|CI182193.1|CI182193EST: GCGTGCTCCACCACCTCCGCCGTCTCTCCGTTGACATCCCCGGCCGCCAG GAGAAGTTCCAGAAGTATCTTTCCGGTGAAGGCCAGAGGCTCAGGCAGCAG
genomic: GCGTGCTCCACCACCTCCGCCGTCTCTCCGTTGACATCCCCGGCCGCCAGgtcccacctc ... attctggcagGAGAAGTTCCAGAAGTATCTTTCCGGTGAAGGCCAGAGGCTCAGGCAGCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtgagcttgtttacagttaattggatgtataaccatttcttgtattctggcagGAGAAGTTCCAGAAGTATCTTTCCGGTGAAGGCCAGAGGCTCAGGCAGCAGGACAGAGCGGCGATGGGCAAGAACTAGCGAAAGACCTCAGGCAATTTCG
gtataac putative branch site (score: 3)
agttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgtttttgtttagtttggatgttcacagctatgctgtacagtacttgtgagcttgtttacagttaattggatgtataaccatttcttgtattctggcagGAGAAGTTCCAGAAGTATCTTTCCGGTGAAGGCCAGAGGCTCAGGCAGCAGGACAGAGCGGCGATGGGCAAGAACTAGCGAAAGACCTCAGGCAATTTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC