Sequence
atgc intronic sequence ATGC exonic sequencegtgaactgttattgccagataaaatgttgggtcatcatttaagttcactccaatcttggttttcttatttactctgtctgtctgcttatgtagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGCTAGTGGACAAAGCCAATGGAGCACCACTCTTCACCGTTGTGCAGTCGGTTCAACCTTCAAAACA
Basic information
species | Oryza sativa |
transcript | LOC_Os03g27350.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g27350.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G173682_T01 (Zea mays), 3'ss of exon 7
gtgaactgttattgccagataaaatgttgggtcatcatttaagttcactccaatcttggttttcttatttactctgtctgtctgcttatgtagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGCTAGTGGACAAAGCCAATGGAGCACCACTCTTCACCGTTGTGCAGTCGGTTCAACCTTCAAAACA
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gtgagccgttgtagtttctcagat------gccatccagttggttttttcaagctctaatccctatgtttcctatttgcatctttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCAATGGAGCGCCACTCTTTACTGTCATGCAGTCAGTCCAGCCATCGAAGCA
upper sequence: LOC_Os03g27350.2 (Oryza sativa), 3'ss of exon 8
lower sequence: GRMZM2G064212_T02 (Zea mays), 3'ss of exon 8
gtgaactgttattgccagataaaatgttgggtcatcatttaagttcactccaatcttggttttcttatttactctgtctgtctgcttatgtagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGCTAGTGGACAAAGCCAATGGAGCACCACTCTTCACCGTTGTGCAGTCGGTTCAACCTTCAAAACA
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gtgaaccgttgtagtttctcgga----tgcccattcggtcatgttttttcaagctctaatccctatgttttctatttgcatctttttatgcagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGTTGGCGGAGAAGGCCAATGGCGCGCCACTCTTTACTGTTGTGCAGTCAATCGAGCCATCGAAACAMapped 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|112786279|gb|EE590445.1|EE590445EST: AGACCTGATAGACCCGTCATTGGCTATCGGTTTTTACTGCCGTGACAAAG ACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGCTAGTGGACAAAGCCA
genomic: AGACCTGATAGACCCGTCATTGGCTATCGGTTTTTACTGCCGTGACAAAGgtgaactgtt ... gcttatgtagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGCTAGTGGACAAAGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaagttcactccaatcttggttttcttatttactctgtctgtctgcttatgtagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGCTAGTGGACAAAGCCAATGGAGCACCACTCTTCACCGTTGTGCAGTCGGTTCAACCTTCAAAACA
tctgctt CT-rich tract
ttttcttatttact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaactgttattgccagataaaatgttgggtcatcatttaagttcactccaatcttggttttcttatttactctgtctgtctgcttatgtagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGCTAGTGGACAAAGCCAATGGAGCACCACTCTTCACCGTTGTGCAGTCGGTTCAACCTTCAAAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA