Sequence
atgc intronic sequence ATGC exonic sequenceCCGATATACAACAGCGCCAAGAGGATGATATAAATAGGGTTTCAACTGTTCTTTCAATTTCAAAGTCAGAAGCATGTGTTCTTCTTCGTAATTATAACTGgtaatggccattacctgccttcacattgctgcctcatactccttttttttttgtcttttttggtgctctatctgtatcaagtttgttatgtctttgattc...
Basic information
species | Oryza sativa |
transcript | LOC_Os04g41470.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os04g41470.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G006428_T01 (Zea mays), 5'ss of exon 2
CCGATATACAACAGCGCCAAGAGGATGATATAAATAGGGTTTCAACTGTTCTTTCAATTTCAAAGTCAGAAGCATGTGTTCTTCTTCGTAATTATAACTGgtaatggccattacctgccttcacattgctgcctcatactccttttttttttgtcttttttggtgctctatctgtatcaagtttgttatgtctttgattc--
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TTGATATCAAGCGGCGCCAAGAGGATGACATAAATAGGGTTTCAACTGTTCTTTCAATTTCCAAACCAGAGGCATGTGTTCTTCTCCGCAACTATAACTGgta-cagtactcacctgcaagaagattgtaatcttactcttgtagtttgctt-cttctgctgccttgctaaatatttttagacaataggctatcaaaattag
upper sequence: LOC_Os04g41470.1 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM5G876621_T02 (Zea mays), 5'ss of exon 2
CCGATATACAACAGCGCCAAGAGGATGATATAAATAGGGTTTCAACTGTTCTTTCAATTTCAAAGTCAGAAGCATGTGTTCTTCTTCGTAATTATAACTGgtaatggccattacctgccttcacattgctgcctcatactcctttttt-ttttgtcttttttggtgctc-tatctgtatcaagtttgttat--gtctttgattc
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TTGATATACAGCGGCGCCAAGAGGATGATATAAATAGGGTTTCAACCGTTCTTTCAATTTCCAAACCAGAAGCATGTGTTCTTCTCCGCAACTATAACTGgta-tagtcctcacctgcaagaagattgtaagcttactcttgtagtttgcttcttctgctaccttgctaatatttttagacaataggctatcaaaattgga---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|29623493|gb|CB628504.1|CB628504EST: CTTTCAATTTCAAAGTCAGAAGCATGTGTTCTTCTTCGTAATTATAACTG GAGTGTCAGTAAGGTGCATGATGAATGGTTTGCTGATGAAGAACATGTTCG
genomic: CTTTCAATTTCAAAGTCAGAAGCATGTGTTCTTCTTCGTAATTATAACTGgtaatggcca ... ccccctgcagGAGTGTCAGTAAGGTGCATGATGAATGGTTTGCTGATGAAGAACATGTTCG
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 |
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CCGATATACAACAGCGCCAAGAGGATGATATAAATAGGGTTTCAACTGTTCTTTCAATTTCAAAGTCAGAAGCATGTGTTCTTCTTCGTAATTATAACTGgtaatggccattacctgccttcacattgctgcctcatactccttttttttttgtcttttttggtgctctatctgtatcaagtttgttatgtctttgattc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC