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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttgaaacttgtacaaaatggtttccagtttatcaccatatattctacaaaatgggattaagttttgatttgctgcagctacatgctttgaatttgcagATTTTGGGTCACTGCTGGAAATCCATTACTCCCAGTGAAATTCGTGTCATCTGGTGTTACAAATGATGG

Basic information

species Oryza sativa
transcript LOC_Os05g03430.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g03430.2 (Oryza sativa), 3'ss of exon 6
lower sequence: GRMZM2G155123_T02 (Zea mays), 3'ss of exon 6
---ttttgaaacttgtacaaaatggtttccagtttatcaccatatattctacaaaatgggattaagttttgatttgctgcagctacatgctttgaatttgcagATTTTGGGTCACTGCTGGAAATCCATTACTCCCAGTGAAATTCGTGTCATCTGGTGTTACAAATGATGG
    | ||||  | | |    |   |   ||  ||  |     || |  ||     ||  |||  ||| | |||   |  |  | ||  ||| | |||||||| |||||||| ||| | |||||||||||||| || ||||||||  ||||||||||||||  |||||||||
gcactctgaagttggcattgcact-tgaacaactttacttagaatttcttatcgtctgcaattctgttctcatt--gtttaattccacccttcgtatttgcagGTTTTGGGTGACTACCGGAAATCCATTACTACCTGTGAAATTTATGTCATCTGGTGTTGGAAATGATGG
















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|88694111|gb|CI738149.1|CI738149
EST:     GTTCCACCCGTTTTCTACTGTGAATTATGCCGACTGAGTCGGGCAGACCC                         ATTTTGGGTCACTGCTGGAAATCCATTACTCCCAGTGAA
genomic: GTTCCACCCGTTTTCTACTGTGAATTATGCCGACTGAGTCGGGCAGACCCgtatgtcttt ... gaatttgcagATTTTGGGTCACTGCTGGAAATCCATTACTCCCAGTGAA
EST: gi|58658984|gb|CK047664.1|CK047664
EST:     GTCCCACCCGTTTTCTACTGTGAATTATGCCGACTGAGTCGGGCAGACCC                         ATATAGGGTCACTGCTGGAAATCCATTACTCCCAGTGAAATTCGTGTCATC
genomic: GTTCCACCCGTTTTCTACTGTGAATTATGCCGACTGAGTCGGGCAGACCCgtatgtcttt ... gaatttgcagATTTTGGGTCACTGCTGGAAATCCATTACTCCCAGTGAAATTCGTGTCATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacaaaatgggattaagttttgatttgctgcagctacatgctttgaatttgcagATTTTGGGTCACTGCTGGAAATCCATTACTCCCAGTGAAATTCGTGTCATCTGGTGTTACAAATGATGG
                  ttttgat  putative branch site (score: 4)
            attaagttttgattt  TA-rich tract