Sequence
atgc intronic sequence ATGC exonic sequencegtaatcatctgaacatccatttctcccattttctgaaatcctatctgaacattaattaatttctttgtatcctgtctgacaatggcacctacagGTTACCGGAACCTAAAGGCGGAGATTGAGGAAGGTATATGCCAGGTCATGTCTTACCTGTGGCTGGAGTCAGAGATCCTTCCATCCACTTCAAGATATGG
Basic information
species | Oryza sativa |
transcript | LOC_Os03g16090.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g16090.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G160198_T01 (Zea mays), 3'ss of exon 11
-----------------gtaatcatctga-acatccatttctcccattt-tctgaaatcctatctgaacattaattaatttctttgtatcctgtctgac--aatggcaccta-----cagGTTACCGGAACCTAAAGGCGGAGATTGAGGAAGGTATATGCCAGGTCATGTCTTACCTGTGGCTGGAGTCAGAGATCCTTCCATCCACTTCAAGATATGG
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gtacatgcatggatggacaaaacatttcatacacccatttatcatctttatttatgaatttcttggaaaaaatatatatttttccgccaaaagcccaaccggatcgtacttttcattcagGTTACCGAAACCTAAACGCGGAGGTGGAAGAAGGCATATGCCAGGTCATGTCTTACTTGTGGCTGGAATCAGAGATTCTTCCGTCATCCTCGAGGCACGC
upper sequence: LOC_Os03g16090.1 (Oryza sativa), 3'ss of exon 11
lower sequence: GRMZM2G151934_T02 (Zea mays), 3'ss of exon 11
------gtaatcatctgaacatccatttctcc--cattttctgaaatcctatctgaacattaattaatttctttgtatcctgtctgacaatggcaccta---cagGTTACCGGAACCTAAAGGCGGAGATTGAGGAAGGTATATGCCAGGTCATGTCTTACCTGTGGCTGGAGTCAGAGATCCTTCCATCCACTTCAAGATATGG
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gtgcaaggaacatttcatagccccattttttcatctttatttatcaattcgacagaagaaaaatgtattttcaaaagctctactgaatcgtaccctttcattcagGTTACCGAAACCTAAACGCGGAGGTTGAAGAAGGAATATGCCAGGTCATGTCTTACCTGTGGCTGGAATCAGAGATTCTTCCGTCGTCCTCAAGGCACGCMapped 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)
Nothing found
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctatctgaacattaattaatttctttgtatcctgtctgacaatggcacctacagGTTACCGGAACCTAAAGGCGGAGATTGAGGAAGGTATATGCCAGGTCATGTCTTACCTGTGGCTGGAGTCAGAGATCCTTCCATCCACTTCAAGATATGG
gtctgac putative branch site (score: 3)
aacattaattaatttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcatctgaacatccatttctcccattttctgaaatcctatctgaacattaattaatttctttgtatcctgtctgacaatggcacctacagGTTACCGGAACCTAAAGGCGGAGATTGAGGAAGGTATATGCCAGGTCATGTCTTACCTGTGGCTGGAGTCAGAGATCCTTCCATCCACTTCAAGATATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC