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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACTTGCTTGCATAAATATCTGGAGGACAATCTATCTCCTGTGCAGTATCATGAGGATTATATCTACAAGCTCATTCATCTGCTGTGTCTACCTGAGATGgtttgtttcacttaacgctctttccaaagtatcatcttttcagcatgacaacaaaatgtgttcctgtttgtcatcttttaaaaattttcacatgtgctga...

Basic information

species Oryza sativa
transcript LOC_Os01g71590.3
intron # 4
splice site 5'
intron type U2

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|29655883|gb|CB652158.1|CB652158
EST:     ATGAGGATTATATCTACAAGCTCATTCATCTGCTGTGTCTACCTGAGATG                         AAAGNNNNNNNGGATACAGTTAGACTGCTTGCTGAAA
genomic: ATGAGGATTATATCTACAAGCTCATTCATCTGCTGTGTCTACCTGAGATGgtttgtttca ... tattgtgcagAAGGTTTTTTTGGATACAGTTAGACTGCTTGCTGAAA
EST: gi|58692413|gb|CK081100.1|CK081100
EST:     ATGAGGATTATATCTACAAGCTCATTCATCTGCTGTGTCTACCTGAGATG                         AAGGNNNNNNNGGATACAGTTAGACTGCTTGCTGAAAAAACAGATAATCTA
genomic: ATGAGGATTATATCTACAAGCTCATTCATCTGCTGTGTCTACCTGAGATGgtttgtttca ... tattgtgcagAAGGTTTTTTTGGATACAGTTAGACTGCTTGCTGAAAAAACAGATAATCTA
EST: gi|58688942|gb|CK077629.1|CK077629
EST:     ATGAGGATTATATCTACAAGCTCATTCATCTGCTGTGTCTACCTGAGATG                         AAGGNNNNNNNGGATACAGTTAGACTGCTTGCTGAAAAAACAGATAATCTA
genomic: ATGAGGATTATATCTACAAGCTCATTCATCTGCTGTGTCTACCTGAGATGgtttgtttca ... tattgtgcagAAGGTTTTTTTGGATACAGTTAGACTGCTTGCTGAAAAAACAGATAATCTA
EST: gi|58656260|gb|CK044940.1|CK044940
EST:     ATGAGGATTATATCTACAAGCTCATTCATCTGCTGTGTCTACCTGAGATG                         AAGGNNNNNNNGGATACAGTTAGACTGCTTGCTGAAAAAACAGATAATCTA
genomic: ATGAGGATTATATCTACAAGCTCATTCATCTGCTGTGTCTACCTGAGATGgtttgtttca ... tattgtgcagAAGGTTTTTTTGGATACAGTTAGACTGCTTGCTGAAAAAACAGATAATCTA

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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TACTTGCTTGCATAAATATCTGGAGGACAATCTATCTCCTGTGCAGTATCATGAGGATTATATCTACAAGCTCATTCATCTGCTGTGTCTACCTGAGATGgtttgtttcacttaacgctctttccaaagtatcatcttttcagcatgacaacaaaatgtgttcctgtttgtcatcttttaaaaattttcacatgtgctga

- - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG