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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaacactagtacccttcccagcccatcttaacacaaggtctaaaatcctcagttgtactgttcctaactggtgtactgtttgcagGAAGCAGTTGAATCAAAAGGATTGAGAGATGATACAACTTGCATTGTCATTGACATAATACCACCAGAGAAACAAAAATGCACTATAGAATCTCCAAAAA

Basic information

species Zea mays
transcript GRMZM2G015610_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G015610_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os04g37660.2 (Oryza sativa), 3'ss of exon 6
gtacaacactagtacccttcccagcccatcttaacacaaggtctaaaatcctcagttgtactgttcctaactggtgtactgtttgcagGAAGCAGTTGAATCAAAAGGATTGAGAGATGATACAACTTGCATTGTCATTGACATAATACCACCAGAGAAACAAAAATGCACTATAGAATCTCCAAAAA
           ||    |  ||| | |||  |     |    |  ||| |   | || ||   | | ||  |  ||     |||| |||||||| ||| |||||||||||||||||||||||| ||||| |||||||||||||||||||| ||||| |||  ||    |||| |  || || ||||||
-----------gttagttcaccacctcattgtgtgcta---ccagaaacctcaaattata---tccttatattctgcttcttttgtagGAAGCAATTGCATCAAAAGGATTGAGAGATGATACGACTTGTATTGTCATTGACATAATACCTCCAGAAAAAATAAGCCCCACTGTGCAACCTGCAAAAA
















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|211452532|gb|FK957877.1|FK957877
EST:     GATGTGCACGGGGGCTTCCTCCTGAGGCTGCAGCCGAGCAAATTGTTAAA                         GAAGCAGTTGAATCAAAAGGATTGAGAGATGATACAACTTGCATTGTCATT
genomic: GATGTGCACGGGGGCTTCCTCCTGAGGCTGCAGCCGAGCAAATTGTTAAAgtacaacact ... ctgtttgcagGAAGCAGTTGAATCAAAAGGATTGAGAGATGATACAACTTGCATTGTCATT
EST: gi|91869347|gb|EB400346.1|EB400346
EST:     GATGTGCACGGGGGCTTCCTCCTGAGGCTGCAGCCGAGCAAATTGTTAAA                         GAAGCAGTTGAATCAAAAGGATTGAGAGATGATACAACTTGCATTGTCATT
genomic: GATGTGCACGGGGGCTTCCTCCTGAGGCTGCAGCCGAGCAAATTGTTAAAgtacaacact ... ctgtttgcagGAAGCAGTTGAATCAAAAGGATTGAGAGATGATACAACTTGCATTGTCATT
EST: gi|32913202|gb|CF018014.1|CF018014
EST:     GATGTGCACGGGGGCTTCCTCCTGAGGCTGCAGCCGAGCAAATTGTTAAA                         GAAGCAGTTGAATCAAAAGGATTGAGAGATGATACAACTTGCATTGTCATT
genomic: GATGTGCACGGGGGCTTCCTCCTGAGGCTGCAGCCGAGCAAATTGTTAAAgtacaacact ... ctgtttgcagGAAGCAGTTGAATCAAAAGGATTGAGAGATGATACAACTTGCATTGTCATT
EST: gi|148930783|gb|EC873124.2|EC873124
EST:     GATGTGCACGGGGGCTTCCTCCTGAGGCTGCAGCCGAGCAAATTGTTAAA                         GAAGCAGTTGAATCAAAAGGATTGAGAGATGATACAACTTGCATTGTCATT
genomic: GATGTGCACGGGGGCTTCCTCCTGAGGCTGCAGCCGAGCAAATTGTTAAAgtacaacact ... ctgtttgcagGAAGCAGTTGAATCAAAAGGATTGAGAGATGATACAACTTGCATTGTCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acacaaggtctaaaatcctcagttgtactgttcctaactggtgtactgtttgcagGAAGCAGTTGAATCAAAAGGATTGAGAGATGATACAACTTGCATTGTCATTGACATAATACCACCAGAGAAACAAAAATGCACTATAGAATCTCCAAAAA
                               tcctaac  putative branch site (score: 1)
        tctaaaat  TA-rich tract