Sequence
atgc intronic sequence ATGC exonic sequenceCCTAGCAGAAATTCAGAATGCACGAGGCATCATGGATGTTCTTTCCGAGATGTTGAATGCTTTGGATCCTAGTAACAGAGAGgtatttatattgtatccggagttatttaaatccttgtaaaattactgatttatatcaaaatatgttattaggattctccctatgtttcttgaactgacattggatatgcag
Basic information
species | Oryza sativa |
transcript | LOC_Os02g17350.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: LOC_Os02g17350.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GRMZM2G053925_T01 (Zea mays), 5'ss of exon 6
CCTAGCAGAAATTCAGAATGCACGAGGCATCATGGATGTTCTTTCCGAGATGTTGAATGCTTTGGATCCTAGTAACAGAGAGgtatttatat--tgtatccggagttatttaaatccttgtaaaattactgat---ttatatcaaaatatg-ttattaggattc-tccctat-gtttcttgaactgacattggatatgcag--------------------------------------------------------------------------------
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CCTTACAGAAATTCAGAACGCACGTGGCATCATGGATGTTCTTTCAGAGATGCTGGATGCTTTAGATCCAGGTAACAGAGAGgtactttcctgatgcacctgtggctatt-gtgccatcataaaattaattatgccttataataaggaagaattgctggtaaccatcttcatcatttcatgaaattttgtttca-aaacaatctacttgcagtgcaatatttctaaattgtacttgcagtgcaagatttcaaatcaatctacttaccgtgccagatttcag
upper sequence: LOC_Os02g17350.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA14G21410.1 (Glycine max), 5'ss of exon 6
CCTAGCAGAAATTCAGAATGCACGAGGCATCATGGATGTTCTTTCCGAGATGTTGAATGCTTTGGATCCTAGTAACAGAGAGgtatttatattgtatccggagttatttaaatccttgtaaaattactgatttatatcaaaatatgttattaggattctccctatgtttcttgaactgacattggatatgcag
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TTTGACTGAAATTCAGAATGCACGGGGCATCATGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAAGTAAgt-tactcaattcaga--cattcaaattatgataaaataaatgtataaaaatacattatattgtaatgattgtgaag------------------------------
upper sequence: LOC_Os02g17350.2 (Oryza sativa), 5'ss of exon 6
lower sequence: GLYMA17G26440.2 (Glycine max), 5'ss of exon 6
CCTAGCAGAAATTCAGAATGCACGAGGCATCATGGATGTTCTTTCCGAGATGTTGAATGCTTTGGATCCTAGTAACAGAGAGgtatttatattgtatccggagttatttaaatccttgtaaaattactgatttatatcaaaatatgttattaggattctccctatgtttcttgaactgacattggatatgcag
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TTTGACTGAAATTCAGAATGCACGTGGCATCATGGATGTTCTTGCAGAAATGCTCAATGCCTTAGACCCTAGTAACAAAGAAgtaagt-tacttaattcaga--cattcaacttatgataaaataaatgtataaaaataaattattttgtaatgattgt---gaagattataggtgtgacattaaata-----
upper sequence: LOC_Os02g17350.2 (Oryza sativa), 5'ss of exon 6
lower sequence: Vv04s0008g03720.t01 (Vitis vinifera), 5'ss of exon 6
CCTAGCAGAAATTCAGAATGCACGAGGCATCATGGATGTTCTTTCCGAGATGTTGAATGCTTTGGATCCTAGTAACAGAGAGgtatttatattgtatccggagttatttaaatccttgtaaaattactgatttatatcaaaatatgttattaggattctccctatgtttcttgaactgacattggatatgcag
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TTTGACAGAAATTCAGAATGCACGAGGTATTATGGATGTCCTTGCAGAAATGCTGAGTGCATTAGATCCAGGAAACAAAGAGgta--tatttgcaatttaaaatgaaggaaaaga--agaaaagtac--attggtgtc---atatgatatataaatactgtaaatactc--tataccgttattaaatgtgtcaMapped 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|58593144|gb|CF991452.1|CF991452EST: TGGATGTTCTTTCCGAGATGTTGAATGCTTTGGATCCTAGTAACAGAGAG GGGCTTAGGCAAGAGGTCATTGTTGACCTGGTGGATCAATGCCGTTCATAC
genomic: TGGATGTTCTTTCCGAGATGTTGAATGCTTTGGATCCTAGTAACAGAGAGgtatttatat ... ggatatgcagGGGCTTAGGCAAGAGGTCATTGTTGACCTGGTGGATCAATGCCGTTCATAC
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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCTAGCAGAAATTCAGAATGCACGAGGCATCATGGATGTTCTTTCCGAGATGTTGAATGCTTTGGATCCTAGTAACAGAGAGgtatttatattgtatccggagttatttaaatccttgtaaaattactgatttatatcaaaatatgttattaggattctccctatgtttcttgaactgacattggatatgcag
- - - - - - - - - - - - - - - - - - - - - - - GAGATG