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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtacccctcgctctctccctacctaaaccctaatcgctctcctctcctcgcgattgattgctattgagagttttctgaggagggaattgggggggattggttccctgtttgccctgtgtgctcgttttgatcggagGTGAGCAGTGGCGGCGGTGGCGGACGGGATGAAGGCGTGGGGGGTGATGCGGGAGCGGGCGTACGCCTTCGACCTCGTGCTCACGGAGGTCACTATGCCC

Basic information

species Oryza sativa
transcript LOC_Os11g05930.2
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g05930.2 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G135446_T01 (Zea mays), 3'ss of exon 1
gtgagtacccctcgctctctccctacctaaaccctaatcgctctcctctcctcgcgattgattgctattgagagttttctgaggagggaattgggggggattggttcc-ctgtttgccctgtgtgctcgt----tttgatcggagGTGAGCAGTGGCGGCGGTGGCGGACGGGATGAAGGCGTGGGGGGTGATGCGGGAGCGGGCGTACGCCTTCGACCTCGTGCTCACGGAGGTCACTATGCCC--------
|||||| | || ||| |||| |   |||   | |  || |||| ||        |   |   |||   ||  |     |   |||   ||||   || | |  ||||  |||  | | ||     ||||     |  |   |  ||   |||||||| ||||| |||||||||||||||||||||| ||| ||||||||||| || |||| |||||||||||| ||||| |||||| | ||||||        
gtgagt-cgccgcgccctctact--ccttctctcccatggctccccagcgagacctgcttgctgcggctgttaaccccccacgga---aattctcggcgctccgttcttctgactcctctcccccctcgcgacctccgggagacggctggcagTGGCCGCGGTCGCGGACGGGATGAAGGCGTGGGAGGTCATGCGGGAGCGTGCCTACGACTTCGACCTCGTCCTCACCGAGGTCGCCATGCCCTCCCTCTC
















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|29661214|gb|CB657489.1|CB657489
EST:     CTCCACCCGCCAGGTCGTCACCGCGCTCCTCCGCAAGTGCGGCTACCGCG                         -TG-GC-G-G-CGG---TGGCGGACGGGATGAAGGCGTGGGGGGTGATGCG
genomic: CTCCACCCGCCAGGTCGTCACCGCGCTCCTCCGCAAGTGCGGCTACCGCGgtgagtaccc ... ttgatcggagGTGAGCAGTGGCGGCGGTGGCGGACGGGATGAAGGCGTGGGGGGTGATGCG
EST: gi|33674795|gb|CF303034.1|CF303034
EST:     CTCCACCCGCCAGGTCGTCACCGCGCTCCTCCGCAAGTGCGGCTACCGCG                         -TG-GC-G-G-CGG---TGGCGGACGGGATGAAGGCGTGGGGGGTGATGCG
genomic: CTCCACCCGCCAGGTCGTCACCGCGCTCCTCCGCAAGTGCGGCTACCGCGgtgagtaccc ... ttgatcggagGTGAGCAGTGGCGGCGGTGGCGGACGGGATGAAGGCGTGGGGGGTGATGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggaattgggggggattggttccctgtttgccctgtgtgctcgttttgatcggagGTGAGCAGTGGCGGCGGTGGCGGACGGGATGAAGGCGTGGGGGGTGATGCGGGAGCGGGCGTACGCCTTCGACCTCGTGCTCACGGAGGTCACTATGCCC
                                           ttttgat  putative branch site (score: 4)
                                       ctcgtttt  CT-rich tract
                                           ttttgat  TA-rich tract