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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagagatactatatcttacagctaccaaaccgatcgcccatcgcaagcagcacgcgtctcgctcgggaacgaattaatcctggtcgatcccatggcgcgtttggtcaattgcagGTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAACCGGGGGGCCACGCGCTCCGCGTCCATCACCGCGGCATGGCCGGACGTGG

Basic information

species Zea mays
transcript GRMZM2G146463_T01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G146463_T02 (Zea mays), 3'ss of exon 14
lower sequence: LOC_Os07g26900.1 (Oryza sativa), 3'ss of exon 12
gtacagagatactatatcttacagctaccaaaccgatcgcccatcgcaagcagcacgcgtctcgctcgggaacgaattaatcctggtcgatcccatggcgcgtttggtcaattgcagGTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAACCGGGGGGCCACGCGCTCCGCGTCCATCACCGCGGCATGGCCGGACGTGG
              | |    ||  ||  | | | |   || |     | || ||    | ||  ||   |   |||          |||||      | | | |  ||   | |||||||||||||||| ||||||   ||| |||| ||||||||||||||| ||||| || |||||| ||  |  |   ||||| ||||| |||| |||| | |
-------------gtgtgcagca-ttattatagctactaccaaaaatcatcaacagat-tttcattccaaactaaatcg--------cgatcttgaatcacatct--tc--ctacagGTATGGGCAGGGCCGCTCTCCCAGCAGAGGACGGCGGTGCTGCTGCTGAACCGCGGCGCCACGGGCAGCCGGCAGATCACGGCGGCGTGGCAGGACATCG
















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|78080807|gb|DV509219.1|DV509219
EST:     GGGTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAG                         GTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAAC
genomic: GGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAGgtacagagat ... tcaattgcagGTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAAC
EST: gi|211420211|gb|FL465092.1|FL465092
EST:     GGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAG                         GTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGTTGCTGCTCAAC
genomic: GGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAGgtacagagat ... tcaattgcagGTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAAC
EST: gi|60396730|gb|DN229595.1|DN229595
EST:     GGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAG                         GTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAAC
genomic: GGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAGgtacagagat ... tcaattgcagGTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAAC
EST: gi|50330298|gb|CO525424.1|CO525424
EST:     GGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAG                         GTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAAC
genomic: GGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAGgtacagagat ... tcaattgcagGTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAAC
EST: gi|89759845|gb|DY688531.1|DY688531
EST:     GGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAG                         GTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAAC
genomic: GGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAGgtacagagat ... tcaattgcagGTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAAC
EST: gi|71430639|gb|DR811689.1|DR811689
EST:     GGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAG                         GTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAAC
genomic: GGCTGGGTGTCCAAGGACAGAAAGTGAGCAAGTACGGCAACGATCTCGAGgtacagagat ... tcaattgcagGTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAAC
EST: gi|60353667|gb|DN220640.1|DN220640
EST:     GCAACGATCTCGAG                         GTATGGGCAGGGCAGCTATAGGGACACAGGAAGGCGGTGCAGCTGCTCAAC
genomic: GCAACGATCTCGAGgtacagagat ... tcaattgcagGTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgctcgggaacgaattaatcctggtcgatcccatggcgcgtttggtcaattgcagGTATGGGCAGGGCAGCTCTCGGGGCACAGGAAGGCGGTGCTGCTGCTCAACCGGGGGGCCACGCGCTCCGCGTCCATCACCGCGGCATGGCCGGACGTGG
            aattaat  putative branch site (score: 3)
            aattaat  TA-rich tract