Sequence
atgc intronic sequence ATGC exonic sequence...gggatgttcttttcttaagttgaacttatgggatctgaacaattttgcttgatgcaaatttaagttctgagatatgcaaaccatgtgctgctttgtgcagGTCGAAGGAGATGGCTGAGGTTGACACCTTCCTCTTCACTTCCGAGTCCGTCAATGAGGGACACCCTGACAAGCTCTGCGACCAGATATCCGATGCGGTG
Basic information
species | Oryza sativa |
transcript | LOC_Os01g18860.2 |
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|86876771|gb|CI309650.1|CI309650EST: AATTGGGGGGAGTGATTTTACGAAAACTGTCGCTTGAGGAG GTCGAAGGAGATGGCTGAGGTTGACACCTTCCTCTTCACTTCCGAGTCCGT
genomic: AATTGGGGGGAGTGATTTTACGAAAACTGTCGCTTGAGGAGgtgtgtcata ... ctttgtgcagGTCGAAGGAGATGGCTGAGGTTGACACCTTCCTCTTCACTTCCGAGTCCGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcttgatgcaaatttaagttctgagatatgcaaaccatgtgctgctttgtgcagGTCGAAGGAGATGGCTGAGGTTGACACCTTCCTCTTCACTTCCGAGTCCGTCAATGAGGGACACCCTGACAAGCTCTGCGACCAGATATCCGATGCGGTG
gcttgat putative branch site (score: 5)
ctgcttt putative PPT
aaatttaagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gggatgttcttttcttaagttgaacttatgggatctgaacaattttgcttgatgcaaatttaagttctgagatatgcaaaccatgtgctgctttgtgcagGTCGAAGGAGATGGCTGAGGTTGACACCTTCCTCTTCACTTCCGAGTCCGTCAATGAGGGACACCCTGACAAGCTCTGCGACCAGATATCCGATGCGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - tgttctt
- - - - - - - - - - - - - - - - - ctgaaca
- - - - - - - - - - - - - - - - - - - - - - - - - gatgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgtgc