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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttcaacagatgatactttgttgttgcagtttgctcctctgtatcagcttagagacatgatttgcatgccatggactgatgacggtttcgaaatttgcagGAAACAATGAATGGGGCCGTATGACATTGAACCAAACATTTACTATAG

Basic information

species Oryza sativa
transcript LOC_Os02g52420.3
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os02g52420.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G101438_T02 (Zea mays), 3'ss of exon 8
-----------------------------cttcaacagatgatactttgttgttgcagtttgctc----ctctgtatcagcttagagacatgatttgcatgccatggac-tgatgacggtttcgaaatttgcagGAAACAATGAATGGGGCCGTATGACATTGAACCAAACATTTACTATAG
                              || |  |  || |   |||   |  | | |  |||     ||||  |   ||  |   ||| ||| | |||  ||     ||   | |  |||||||||||||||||||||||||||||| |||||||  ||||| ||||||||||||||||
gtgagttccccactttaacgaaaacatctttttattaattgctgtcttgcc-tcccggctatctcaaggttctggttgcactctgcaccat-attaggatgtgatatctgtgccaatgacttcgaaatttgcagGAAACAATGAATGGGGACGTATGATGTTGAATCAAACATTTACTATAG
















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|86492814|gb|CI135447.1|CI135447
EST:     TCATGGGGTTGGACAAGTGTTTCATGCTGAACCTGTGGTGCTTCATTTCC                         GAAACAATGAATGGGGCCGTATGACATTGAACCCAACATTTACTATAG
genomic: TCATGGGGTTGGACAAGTGTTTCATGCTGAACCTGTGGTGCTTCATTTCCgtgagtcctt ... aaatttgcagGAAACAATGAATGGGGCCGTATGACATTGAACCAAACATTTACTATAG
EST: gi|38482500|gb|CF966534.1|CF966534
EST:     TCATGGGGTTGGACAAGTGTTTCATGCTGAACCTGTGGTGCTTCATTTCC                         GAAACAATGAATGGGGCCGTATGACATTGAACCAAACATTTACTATAG
genomic: TCATGGGGTTGGACAAGTGTTTCATGCTGAACCTGTGGTGCTTCATTTCCgtgagtcctt ... aaatttgcagGAAACAATGAATGGGGCCGTATGACATTGAACCAAACATTTACTATAG
EST: gi|86494445|gb|CI137078.1|CI137078
EST:     TCATGGGGTTGGACAAGTGTTTCATGCTGAACCTGTGGTGCTTCATTTCC                         GAAACAATGAATGGGGCCGTATGACATTGAACCAAACATTTACTATAG
genomic: TCATGGGGTTGGACAAGTGTTTCATGCTGAACCTGTGGTGCTTCATTTCCgtgagtcctt ... aaatttgcagGAAACAATGAATGGGGCCGTATGACATTGAACCAAACATTTACTATAG
EST: gi|29657570|gb|CB653845.1|CB653845
EST:     TCATGGGGTTGGACAAGTGTTTCATGCTGAACCTGTGGTGCTTCATTTCC                         GAAACAATGAATGGGGCCGTATGACATTGAACCAAACATTTACTATAG
genomic: TCATGGGGTTGGACAAGTGTTTCATGCTGAACCTGTGGTGCTTCATTTCCgtgagtcctt ... aaatttgcagGAAACAATGAATGGGGCCGTATGACATTGAACCAAACATTTACTATAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcttagagacatgatttgcatgccatggactgatgacggtttcgaaatttgcagGAAACAATGAATGGGGCCGTATGACATTGAACCAAACATTTACTATAG
                            gactgat  putative branch site (score: 3)
                                             aaattt  TA-rich tract