Sequence
atgc intronic sequence ATGC exonic sequencegtcacagcagatatatgatcattgttatggaactattttttctcattcctgatttttttttctctgtatcacgcagGATGTGGCTGGAGACGATGTTGTTGGGAGCAAGCAGCCGATCGATCAATCAGTGGGCAAGGAGGTGACGCTGAATGCGAAGATGGAATTGGCGGCATCAT
Basic information
species | Oryza sativa |
transcript | LOC_Os02g44340.1 |
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|88364896|gb|CI614514.1|CI614514EST: TCCGTATCAGTGACAAGTACTCGAGCAAGAAGTCTTCCCTGGTTCCCAAG GATGTGGCTGGAGACGATGTTGTTGGGAGCAAGCAGCCGATCGATCAATCA
genomic: TCCGTATCAGTGACAAGTACTCGAGCAAGAAGTCTTCCCTGGTTCCCAAGgtcacagcag ... tatcacgcagGATGTGGCTGGAGACGATGTTGTTGGGAGCAAGCAGCCGATCGATCAATCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgttatggaactattttttctcattcctgatttttttttctctgtatcacgcagGATGTGGCTGGAGACGATGTTGTTGGGAGCAAGCAGCCGATCGATCAATCAGTGGGCAAGGAGGTGACGCTGAATGCGAAGATGGAATTGGCGGCATCAT
tcctgat putative branch site (score: 3)
ctattttttctcattc CT-rich tract
tattttttctcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcacagcagatatatgatcattgttatggaactattttttctcattcctgatttttttttctctgtatcacgcagGATGTGGCTGGAGACGATGTTGTTGGGAGCAAGCAGCCGATCGATCAATCAGTGGGCAAGGAGGTGACGCTGAATGCGAAGATGGAATTGGCGGCATCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA