Sequence
atgc intronic sequence ATGC exonic sequence...tgtcaatcactcacttggtcaaatttgatccaaagcagcgttgctaaattcatctgagttcagattgcgagtttgtgacattgggtttggttttgcgcagCAATGGTGTCAAGAAGTCTGCAGCTTGTCGGCGCGTTGCTGCTGCCGCTGCTCGCCGTCGTGTCGTCGTTTGATCCGTTCCACCGTGATGCGAACCCCAT
Basic information
species | Oryza sativa |
transcript | LOC_Os01g08170.1 |
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|88760406|gb|CI769962.1|CI769962EST: TCATCGAGGTCTCCCAGCTTGAGGAGCACTGAAGAAATTTCTATGTTGAG CAATGGTGTCAAGAAGTCTGCAGCTTGTCGGCGCGTTGATGCTGCCGCTGC
genomic: TCATCGAGGTCTCCCAGCTTGAGGAGCACTGAAGAAATTTCTATGTTGAGgtcagtgatc ... ttttgcgcagCAATGGTGTCAAGAAGTCTGCAGCTTGTCGGCGCGTTGCTGCTGCCGCTGC
EST:
gi|88745596|gb|CI768956.1|CI768956EST: TCATCGAGGTCTCCCAGCTTGAGGAGCACTGAAGAAATTTCTATGTTGAG CAATGGTGTCAAGAAGTCTGCAGCTTGTCGGCGCGTTGCTGCTGCCGCTGC
genomic: TCATCGAGGTCTCCCAGCTTGAGGAGCACTGAAGAAATTTCTATGTTGAGgtcagtgatc ... ttttgcgcagCAATGGTGTCAAGAAGTCTGCAGCTTGTCGGCGCGTTGCTGCTGCCGCTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaattcatctgagttcagattgcgagtttgtgacattgggtttggttttgcgcagCAATGGTGTCAAGAAGTCTGCAGCTTGTCGGCGCGTTGCTGCTGCCGCTGCTCGCCGTCGTGTCGTCGTTTGATCCGTTCCACCGTGATGCGAACCCCAT
tgctaaa putative branch site (score: 2)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtcaatcactcacttggtcaaatttgatccaaagcagcgttgctaaattcatctgagttcagattgcgagtttgtgacattgggtttggttttgcgcagCAATGGTGTCAAGAAGTCTGCAGCTTGTCGGCGCGTTGCTGCTGCCGCTGCTCGCCGTCGTGTCGTCGTTTGATCCGTTCCACCGTGATGCGAACCCCAT
- - - - - - - - - - - - - -atccaaa
- - - - - - - - - - - - - - - - - - - cgttgct