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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaactgccgccagtactgtcttcgtaccaaagtaaagtccaatcaaatctacgtaaaagtatattgatgtctgtaatgtatgaacttgcatatgatgcagGGGTAGGAAACCGGCGGCGAAGAAGGGGCAGAAGCGGGCGCGGCAGCCGCGGTTCGCGTTCATGACCAAGACCGAGCTCGATCACCTCGACGACGGCTAT

Basic information

species Zea mays
transcript GRMZM2G143204_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G143204_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g55080.1 (Oryza sativa), 3'ss of exon 1
-----gaactgccgccagtactgtcttcgtaccaaagt----aaagtccaatcaaatctacgtaaaagtatattga---tgtctgta-atgtatgaacttgcatatgatgcagGGGTAGGAAAC--CGGCGGCGAAGAAGGGGCAGAAGCGGGCGCGGCAGCCGCGGTTCGCGTTCATGACCAAGACCGAGCTCGATCACCTCGACGACGGCTAT
     |   ||    ||||   |     || | ||  |    |   |   ||      | | |  |    | ||||   ||  |||   ||| ||| |  ||    |  |  || |  ||  ||  || |||||||||||||||||||| ||||| |||||||||||||||||||||||||||||| |||| | || |||               
atgacgcggtggtttcagtgaagaaagtgtgctaattttttgagtttttcatggcggtttctttgatcggttttgacagtgcatgtgtgtgtttgatcagGCCGGCGGCGGCGGCGACGGCGACGGCGACGGCGAAGAAGGGGCAGAAGAGGGCGAGGCAGCCGCGGTTCGCGTTCATGACCAAGAGCGAGATTGACCAC---------------
















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|71428707|gb|DR809757.1|DR809757
EST:     GGCGGCCTAGCCGGGGAACTCATCCCGGTGCTGGATCTGCCCGAGGCAGCAGCACCGCTGCCCGCCCAACTGTCCACGGAGCCATCGGAGGAGCCTGCGCCCGCCAGGTCGGGGGACGCCGGCGCG
genomic: GGCGGCCTAGCCGGGGAACTCATCCCGGTGCTGGATCTGCCCGAGGCAGCAGCACCGCTGCCCGCCCAACTGTCCACGGAGCCATCGGAGGAGCCTGCGCCCGCCAGGTCGGGGGACGCCGGCGCG
EST: gi|76913751|gb|DV165250.1|DV165250
EST:     GGCGGCCTAGCCGGGGAACTCATCCCGGTGCTGGATCTGCCCGAGGCAGCAGCACCGCTGCCCGCCCAACTGTCCACGGAGCCATCGGAGGAGCCTGCGCCCGCCAGGTCGGGGGACGCCGGCGCG
genomic: GGCGGCCTAGCCGGGGAACTCATCCCGGTGCTGGATCTGCCCGAGGCAGCAGCACCGCTGCCCGCCCAACTGTCCACGGAGCCATCGGAGGAGCCTGCGCCCGCCAGGTCGGGGGACGCCGGCGCG
EST: gi|101386129|gb|EB815105.1|EB815105
EST:     GGCGGCCTAGCCGGGGAACTCATCCCGGTGCTGGATCTGCCCGAGGCAGCAGCACCGCTGCCCGCCCAACTGTCCACGGAGCCATCGGAGGAGCCTGCGCCCGCCAGGTCGGGGGACGCCGGCGCG
genomic: GGCGGCCTAGCCGGGGAACTCATCCCGGTGCTGGATCTGCCCGAGGCAGCAGCACCGCTGCCCGCCCAACTGTCCACGGAGCCATCGGAGGAGCCTGCGCCCGCCAGGTCGGGGGACGCCGGCGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatctacgtaaaagtatattgatgtctgtaatgtatgaacttgcatatgatgcagGGGTAGGAAACCGGCGGCGAAGAAGGGGCAGAAGCGGGCGCGGCAGCCGCGGTTCGCGTTCATGACCAAGACCGAGCTCGATCACCTCGACGACGGCTAT
                tattgat  putative branch site (score: 3)
        taaaagtatattgat  TA-rich tract