Sequence
atgc intronic sequence ATGC exonic sequenceGTCCCCGGGGACGTCGTCCTCGACCTCGCCGAGATGACCAACCAGACCATCAAGCTCGGCGCCGGCCTGCGACAGgtaacttcgtttcgtggtggcaagtggggctttgtgagagattgttagggattagggtttaatcaagggtttattgttatgcttatgagtgctccccggtgtttgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os01g47256.3 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os01g47256.4 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM2G173989_T02 (Zea mays), 5'ss of exon 3
GTCCCCGGGGACGTCGTCCTCGACCTCGCCGAGATGACCAACCAGACCATCAAGCTCGGCGCCGGCCTGCGACAGgtaacttcgtttcgtggtggcaagtggg-------gctttgtgagagattgttagggattagggtttaatcaagggtttatt-----gttatgcttatgagtgctccc-cggtgtttgcag
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GTACCTGGTGACGTCGTCCTGGACCTCTCTGAGATGAACAACCAGACCATTAAACTCGGCGCGGGTCTGCGTCAGgtaagcctatt-catggtggaatgtgggagccgttgtcttttgtgagac--ttagtggttagggtttaat--ggggtttgtttgggcacgaggcttattggtgattaaacggggtttgtag
upper sequence: LOC_Os01g47256.4 (Oryza sativa), 5'ss of exon 2
lower sequence: GRMZM5G802854_T01 (Zea mays), 5'ss of exon 3
GTCCCCGGGGACGTCGTCCTCGACCTCGCCGAGATGACCAACCAGACCATCAAGCTCGGCGCCGGCCTGCGACAGgtaacttcgtttcgtggtggcaagtggg-------gctttgtgagagattgttagggattagggtttaatcaag--ggtttattgttatgcttatgagtgctccc-cggtgtttgcag
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GTACCTGGTGATGTCGTCCTGGACCTCTCCGAGATGAACAACCAGACCATTAAACTCGGCGCGGGCCTGCGTCAGgtaagtctatt-catggtggaatgtgggagccgttgtcttttgtgagac--ttagtggttagggtttaatgggtttgtttgggcacgaggcttatcggtgataaaacggggtttgtagMapped 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|58653630|gb|CK042310.1|CK042310EST: TCGCCGAGATGACCAACCAGACCATCAAGCTTGGCGCCGGCCTGCGACAG GATTGCGACACCATACAGGCTACCAGTGCTGGGAGGCTACGGCTTTCGAAG
genomic: TCGCCGAGATGACCAACCAGACCATCAAGCTCGGCGCCGGCCTGCGACAGgtaacttcgt ... gtgtttgcagGATTGCGACACCATACAGGCTACCAGTGCTGGGAGGCTACGGCTTTCGAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCCCCGGGGACGTCGTCCTCGACCTCGCCGAGATGACCAACCAGACCATCAAGCTCGGCGCCGGCCTGCGACAGgtaacttcgtttcgtggtggcaagtggggctttgtgagagattgttagggattagggtttaatcaagggtttattgttatgcttatgagtgctccccggtgtttgcag
- - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT