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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattttgcaaacttgcaatttcaatctaaacttcaattatgactttttcccatatacttacttttgttcatggcacagGGAAAGCTTTTGGTGTCACAGATTTTATTAATCCAGAAGAATTGAATGAACCTGTTCAGCAG

Basic information

species Oryza sativa
transcript LOC_Os02g42520.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g42520.3 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G149272_T02 (Zea mays), 3'ss of exon 6
gtattttgcaaacttgcaatttcaatctaaac-ttcaattatgactttttcccatatacttacttttgttcatggcacagGGAAAGCTTTTGGTGTCACAGATTTTATTAATCCAGAAGAATTGAATGAACCTGTTCAGCAG
||||  | |   ||  |  | ||||  |  || |||   |||||    |     | |   |  |||||||| ||| ||||||||| | ||||||||||| || |||||||| ||||| ||||||| |||||||||||| |||
gtatgctacctgct-acgctgtcaagttgtacattctgctatgaaccctctttgtgttaattattttgttcctggtacagGGAAATCATTTGGTGTCACGGACTTTATTAACCCAGATGAATTGAGTGAACCTGTTCAACAG
















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|27576860|gb|CA999554.1|CA999554
EST:     GGCTTCTATAATTATCGGTGTTGATACTAATCCTGAAAAGCAAGAAAAGG                         GGAAAGCTTTTGGTGTCACAGATTTTATTAATCCAGAAGAATTGAATGAAC
genomic: GGCTTCTATAATTATCGGTGTTGATACTAATCCTGAAAAGCAAGAAAAGGgtattttgca ... catggcacagGGAAAGCTTTTGGTGTCACAGATTTTATTAATCCAGAAGAATTGAATGAAC
EST: gi|27577599|gb|CB000294.1|CB000294
EST:     GGCTTCTATAATTATCGGTGTTGATACTAATCCTGAAAAGCAAGAAAAGG                         GGAAAGCTTTTGGTGTCACAGATTTTATTAATCCAGAAGAATTGAATGAAC
genomic: GGCTTCTATAATTATCGGTGTTGATACTAATCCTGAAAAGCAAGAAAAGGgtattttgca ... catggcacagGGAAAGCTTTTGGTGTCACAGATTTTATTAATCCAGAAGAATTGAATGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atctaaacttcaattatgactttttcccatatacttacttttgttcatggcacagGGAAAGCTTTTGGTGTCACAGATTTTATTAATCCAGAAGAATTGAATGAACCTGTTCAGCAG
                               tacttac  putative branch site (score: 1)
                                     cttttgttc  CT-rich tract
           aattatgacttttt  TA-rich tract