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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgattatctacttgaattctagcgtgatggatatgttgatgtacaggcagcatgaatgcacgaagttttaacttttaaccatgcgtgatgctatctgcagATTACGGAGACCAACTACACGAGGCTCTGCCACGAGAAGAGCATCCTCACCGTGAACGGGCAGTTCCCCGGGCCGACCATCTACGCGCGCAAGGGCGACT

Basic information

species Oryza sativa
transcript LOC_Os01g27700.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g27700.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G169033_T01 (Zea mays), 3'ss of exon 1
gtaagtgattatctacttgaattctagcgtgatggatatgttgatgtacaggcagcatgaatgca-cgaagttttaacttttaaccatgcgtgatgctatctgcagATTACGGAGACCAACTACACGAGGCTCTGCCACGAGAAGAGCATCCTCACCGTGAACGGGCAGTTCCCCGGGCCGACCATCTACGCGCGCAAGGGCGACT
  | ||   | | ||| ||| || ||   | ||| | |    || |   | |  |  | |||  | ||  | | |    | |    ||   | ||    | ||||||| || ||||| ||   |||  | || ||||| ||||||| ||||||  ||||||||||||||||||| ||||||||||||||||||||||||| |||| 
--atgtatgtgtatacatga-ttttaatat-atgtagagaaggaggacgacgacgtctaaatataacgccggtgtggggtgtg-tgatatat-atatattttgcagATAACTGAGACGAAGGTCACCCGACTATGCCATGAGAAGACCATCCTGGCCGTGAACGGGCAGTTCCCGGGGCCGACCATCTACGCGCGCAAGGACGACG

upper sequence: LOC_Os01g27700.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G320786_T01 (Zea mays), 3'ss of exon 1
--------------------------------------------------------------gtaagtgattatctacttgaattctagcgtgatgg---atatgttgatgtacaggcagcatgaatgca--cgaagttttaactt--ttaaccat---gcgtgatgc-tat---ctgcagATTACGGAGACCAACTACACGAGGCTCTGCCACGAGAAGAGCATCCTCACCGTGAACGGGCAGTTCCCCGGGCCGACCATCTACGCGCGCAAGGGCGACT
                                                               |   | ||||  || ||||   | |  |  |||    | | |   |       ||| |||| ||  |  || |   || | ||  ||||  |     || |||   |||    ||||||| | |||||||||   |||  |||||||||||||||||| ||||||  ||||||||||||||||||||||||||||||||||||||||||||| |||| 
gtaagtagagacctatatatagctctatagctgtattccagcatctttgctagttatccaagctccttaattagttaattgatgcccactgctatgtgctacacgcctacactactgcaccatgcatatatgcgtatacttgatttcattaaataacgaacgagatatatatgtcttgcagATAAAGGAGACCAATGTCACCCGGCTCTGCCACGAGAAGACCATCCTGGCCGTGAACGGGCAGTTCCCCGGGCCGACCATCTACGCGCGCAAGGACGACG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcagcatgaatgcacgaagttttaacttttaaccatgcgtgatgctatctgcagATTACGGAGACCAACTACACGAGGCTCTGCCACGAGAAGAGCATCCTCACCGTGAACGGGCAGTTCCCCGGGCCGACCATCTACGCGCGCAAGGGCGACT
                           ttttaac  putative branch site (score: 2)
                 aagttttaacttttaa  TA-rich tract