Sequence
atgc intronic sequence ATGC exonic sequenceGTTTTCAAGAGGGGTGCAGAACCAAATTCCAATAACAAGTCAGGTTCAACTAAATGGGACCTCTCTGCCACAATTACTGTGAAACAGAAAAGGAGAGCAGgtgacactgctttttttttttttggtttcatgtggcacaccctttacttttttcattttatgcgatatgcagtctgtatgtcttagctaaatgtcgataatccaataaattttattatgtgagcttaaagtgtcgaattttccttacaatagttttgagagcagtggacttgtattttag
Basic information
species | Oryza sativa |
transcript | LOC_Os03g56234.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g56234.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G152319_T01 (Zea mays), 5'ss of exon 7
---GTTTTCAAGAGGGGTGCAGAACCAAATTCCAATAACAAGTCAGGTTCAACTAAATGGGACCTCTCTGCCACAATTACTGTGAAACAGAAAAGGAGAGCAGgtga-cac-tgctttttttttttttggtttcatgtggcacacc--ctttacttttttcattttatgcgatatgcagtctgtatgtcttagctaaat-gtcgataatccaataaatt---ttattatgt----gagct-taaagtgtcgaattttccttacaat-----agttttgagagcagtggacttgtattttag
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ACAATTTTCAAGCGGATTGCAGAACCAATTTC---TAACAAGTCAGGAACAACTAAAGGGGACCTCTCTGCCACAAGAACCGTGAAACAGAAAAGGAAGGCAGgtgggcgcatgttctctgttagtctgttcttttgttatgacctagccttgcttatcttttgccacacaatctgtgtgatttgagtctcggtgaaatcgttgatgattgaaactatcaaactatcatgtagaagagctctctagtggtgaacctttgttacattgcattaatgtggatagatggtgacctgtgttttag
upper sequence: LOC_Os03g56234.1 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G085427_T02 (Zea mays), 5'ss of exon 7
---GTTTTCAAGAGGGGTGCAGAACCAAATTCCAATAACAAGTCAGGTTCAACTAAATGGGACCTCTCTGCCACAATTACTGTGAAACAGAAAAGGAGAGCAGgtga-cactgctttttttttttttggtttcatgtggcacaccctttacttttttcattttatgcgatatgcagtctgtatgtcttagctaaat-gtcgataatccaataaattttattatgtgagcttaaagtgtcgaattttccttacaatagttttgagagcagtggacttgtattttag
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TCAATTTTCAAGCAGGTTGCAGAACCGATTTC---TAACAAGCCAGGGACAACTAAAGGGGAACTCTCTGCCACAAGAACCGTGAAACAAAAAAGGAAGGCAGgtgggcacatattctctttccctttgtt----atgacctagcctt-gcctatcttttgtcaaaatctgtgtggttaga--gttttggtgaaattgtttttgattaattatcatgtagaggaccctctcta-gtggtgaatctttgttgcattaatgtggatagctggtgagctatgttttagMapped 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|66918282|gb|CX105130.1|CX105130EST: TAAATGGGACCTCTCTGCCACAATTACTGTGAAACAGAAAAGGAGAGCAG GTGGTGGCATTGCATCTACTGCATATAAAAAATGGGAGAGAGATGC
genomic: TAAATGGGACCTCTCTGCCACAATTACTGTGAAACAGAAAAGGAGAGCAGgtgacactgc ... tgtattttagGTGGTGGCATTGCATCTACTGCATATAAAAAATGGGAGAGAGATGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTTTCAAGAGGGGTGCAGAACCAAATTCCAATAACAAGTCAGGTTCAACTAAATGGGACCTCTCTGCCACAATTACTGTGAAACAGAAAAGGAGAGCAGgtgacactgctttttttttttttggtttcatgtggcacaccctttacttttttcattttatgcgatatgcagtctgtatgtcttagctaaatgtcgataatccaataaattttattatgtgagcttaaagtgtcgaattttccttacaatagttttgagagcagtggacttgtattttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG