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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtcaatcctgtctttcccttcttcttcttttttttaaagaaagaaaccttttgtatgatacaaaattatttctcctgatgttatacctacattaaaaaacttctactttgacttctcatagtcatccaaaatttttcatcttgtagGTTTCAGTTGCGCTATCAAGAGGATATCGAGTTCAATAAGATTGATCTCCGTGATAATGTTGCACAGATTTGTGTTTTAGAG

Basic information

species Oryza sativa
transcript LOC_Os01g42490.2
intron # 4
splice site 3'
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|29637192|gb|CB642201.1|CB642201
EST:     CGGACTGGAAATGCCACTGATGGATGTGCGATCTTTTGGCGAACAGCTAG                         GTTTCAGTTGCGCTATCAAGAGGATATCGAGTTCAATAAGATTGATCTCCG
genomic: CGGACTGGAAATGCCACTGATGGATGTGCGATCTTTTGGCGAACAGCTAGgtgtgtcaat ... catcttgtagGTTTCAGTTGCGCTATCAAGAGGATATCGAGTTCAATAAGATTGATCTCCG
EST: gi|300215928|gb|HO088554.1|HO088554
EST:     CCGACTGGAGATGCCTCTGATGGATGTGCCATCTTTTGGCGAACAGCTAG                         GTTTCGGTTGCGCTATCGAGAGGATATCTAGTTAAATAAGATTGATCTCCG
genomic: CGGACTGGAAATGCCACTGATGGATGTGCGATCTTTTGGCGAACAGCTAGgtgtgtcaat ... catcttgtagGTTTCAGTTGCGCTATCAAGAGGATATCGAGTTCAATAAGATTGATCTCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaaaaaacttctactttgacttctcatagtcatccaaaatttttcatcttgtagGTTTCAGTTGCGCTATCAAGAGGATATCGAGTTCAATAAGATTGATCTCCGTGATAATGTTGCACAGATTTGTGTTTTAGAG
              ctttgac  putative branch site (score: 4)
                                        tttttcatctt  putative PPT
                                    aaaatttttcatctt  TA-rich tract