Sequence
atgc intronic sequence ATGC exonic sequenceAGAACGGCAACCTGGAGCAGTGGCTGCACGGCGACGTTGGCCCGGTCAGCCCGCTGACATGGGACATTCGGATGAAGATCGCCGTCGGAACGGCCAAAGGgtgatgaccggtgtcgatttgccctgaatttccatctctcgctcttccgtatcggcaggtgactgatctgacattgtggatgctgatattgtccattgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os03g12680.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os03g12680.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G478876_T01 (Zea mays), 5'ss of exon 3
AGAACGGCAACCTGGAGCAGTGGCTGCACGGCGACGTTGGCCCGGTCAGCCCGCTGACATGGGACATTCGGATGAAGATCGCCGTCGGAACGGCCAAAGGgtg---atgaccggtgtcgatttgccctgaatttccatctctcgctcttccgtatcggcaggtgactgatctgacattgtggatgctgatattgtccattgcag
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AAAACGGGAACCTGGAGCAGTGGCTGCACGGCGACGTCGGTCCGGTCAGCCCTTTGACCTGGGAAATACGGATGAAGATCGCCGTCGGAACGGCCAAAGGgtatgtatgttca-tgttcagttctgctgacagggtacttcatgatctaatct-tcggtttctg-ctaaccggatcgaatctatgcag----------------
upper sequence: LOC_Os03g12680.2 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM2G043470_T01 (Zea mays), 5'ss of exon 3
AGAACGGCAACCTGGAGCAGTGGCTGCACGGCGACGTTGGCCCGGTCAGCCCGCTGACATGGGACATTCGGATGAAGATCGCCGTCGGAACGGCCAAAGGgtg-----atgaccgg-tgtcgatttgcc--ctgaat-ttccat--ctctcgctcttccgta-tcggcaggtgactgatctgacattgtggatgctgatattgtccattgcag-----------------------------
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AAAATGGCAACTTGGAGCAGTGGCTGCACGGCGACGTCGGACCGGTCAGCCCTCTGACCTGGGAAATACGGATGAAGATCGCCGTCGGAACGGCCAAAGGgtatgctcatgctctgctgacagtttactgacagggtacttcataatcttcggttgttagtaatctgtgtgtgcatagcgaaataaatcgactgctaatgttgcccatgtatgtaccactgaatcgaatcggatctatgcag
upper sequence: LOC_Os03g12680.2 (Oryza sativa), 5'ss of exon 3
lower sequence: Vv03s0063g02510.t01 (Vitis vinifera), 5'ss of exon 3
AGAACGGCAACCTGGAGCAGTGGCTGCACGGCGACGTTGGCCCGGTCAGCCCGCTGACATGGGACATTCGGATGAAGATCGCCGTCGGAACGGCCAAAGGgtgatgaccggtgtcgatttgccctgaatttccatctctcgctcttccgtatcggcaggtgactgatctgacattgtggatgctgata-ttgtccattgcag
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ACAATGGCAATTTGGAGCAGTGGTTGCATGGTGATGTAGGGCCTGTCAGTCCTCTAACATGGGATATTCGGATGAAGATTGCTGTTGGAACTGCAAAAGGgtgtgatattctgccatctttatatacatttt-atttcttaggtgcctttgtttgtctcagctgtgcatgtctttttcctttcgtttgcttctcgattacc-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|86505647|gb|CI148280.1|CI148280EST: CATTCGGATGAAGATCGCCGTCGGAACGGCCAAAGG AATAGCGTACCTGCACGAAGGCCTGGAGCCCAAAGTTGTGCACCGAGACAT
genomic: CATTCGGATGAAGATCGCCGTCGGAACGGCCAAAGGgtgatgaccg ... tccattgcagAATAGCGTACCTGCACGAAGGCCTGGAGCCCAAAGTTGTGCACCGAGACAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAACGGCAACCTGGAGCAGTGGCTGCACGGCGACGTTGGCCCGGTCAGCCCGCTGACATGGGACATTCGGATGAAGATCGCCGTCGGAACGGCCAAAGGgtgatgaccggtgtcgatttgccctgaatttccatctctcgctcttccgtatcggcaggtgactgatctgacattgtggatgctgatattgtccattgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA