Sequence
atgc intronic sequence ATGC exonic sequenceAGGCAAACCTCCTGTTCCTGGAATCACCTGCCGGAGTTGGCTTTTCATACTCCAACACCACCTCTGATCTCAAGACATCTGGTGATGAGAGGACAGgtatgtaatctgaaatttactgaccaaatctgtcttaacactgcatcataaaatggcaaactgctgaatgttcccttgatgttcttctgaatgtgatgtgatgtgatgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os02g55130.4 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g55130.5 (Oryza sativa), 5'ss of exon 3
lower sequence: GRMZM5G879749_T02 (Zea mays), 5'ss of exon 3
AGGCAAACCTCCTGTTCCTGGAATCACCTGCCGGAGTTGGCTTTTCATACTCCAACACCACCTCTGATCTCAAGACATCTGGTGATGAGAGGACAGgtatgtaatc--tgaaatttactg----acca--aatctgtcttaacactgcatcataaaa---tggcaaactgctgaatg---ttcccttgatgttcttctgaatg-tgatgtgatgtgatgcag------------------------------------
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AGGCAAACCTTCTGTTCCTCGAGTCGCCCGCGGGAGTCGGCTTCTCCTACGCCAACACCACCTCGGACCTCAAGACGTCGGGCGACGAGAGGACCGgtacgtacgtagtgaactctgctgctgggccatcgagctagctagcagctagctcctcagactctgacgatgcctgaaatgaaacgccattagcagctgtgtcactggtcaggtagtcccagctagctgacgccgttgcgaaatgtgaattgttggctgcag
upper sequence: LOC_Os02g55130.5 (Oryza sativa), 5'ss of exon 3
lower sequence: EFJ35996 (Selaginella moellendorffii), 5'ss of exon 4
AGGCAAACCTCCTGTTCCTGGAATCACCTGCCGGAGTTGGCTTTTCATACTCCAACACCACCTCTGATCTCAAGACATCTGGTGATGAGAGGACAGgta-tgtaatctgaaatttactgaccaaatctgtcttaacactgcatcataaaatggcaaactgctgaatgttcccttgatgttcttctgaatgtgatgtgatgtgatgcag
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TGGCGAATTTGCTCTTCCTGGAATCTCCTGCCGGTGTTGGCTACTCATATTCCAATACCACCACTGACACAGACGCATTTGGCGACACTCGAACTGgtaacgtttttctattcttctttattgtggaggattctctcttttgtttttagagaaaaaccgatcgaatgagttcgattctttgctttcattgaaactt------------
upper sequence: LOC_Os02g55130.5 (Oryza sativa), 5'ss of exon 3
lower sequence: EFJ36223 (Selaginella moellendorffii), 5'ss of exon 4
AGGCAAACCTCCTGTTCCTGGAATCACCTGCCGGAGTTGGCTTTTCATACTCCAACACCACCTCTGATCTCAAGACATCTGGTGATGAGAGGACAGgta-tgtaatctgaaatttactgaccaaatctgtcttaacactgcatcataaaatggcaaactgctgaatgttcccttgatgttcttctgaatgtgatgtgatgtgatgcag
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TGGCGAATTTGCTCTTCCTGGAATCTCCTGCCGGTGTTGGCTACTCATATTCCAATACCACCACTGACACAGACGCATTTGGCGACACTCGAACTGgtaacgtttttctattcttctttattctggaggattctctcttttgtttttagagaaaaaccgatcgaatgagttcgattctttgctttcactgaaactt------------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|58655220|gb|CK043900.1|CK043900EST: ATACTCCAACACCACCTCTGATCTCAAGACATCTGGTGATGAGAGGACAG CTCAAGATGCGTTGCAGTTCTTGATCAGTTGGATGTCCCGCTTCCCACAGT
genomic: ATACTCCAACACCACCTCTGATCTCAAGACATCTGGTGATGAGAGGACAGgtatgtaatc ... tgtgatgcagCTCAAGATGCGTTGCAGTTCTTGATCAGTTGGATGTCCCGCTTCCCACAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGCAAACCTCCTGTTCCTGGAATCACCTGCCGGAGTTGGCTTTTCATACTCCAACACCACCTCTGATCTCAAGACATCTGGTGATGAGAGGACAGgtatgtaatctgaaatttactgaccaaatctgtcttaacactgcatcataaaatggcaaactgctgaatgttcccttgatgttcttctgaatgtgatgtgatgtgatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA