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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcggcgatccccatcccgagatcacgctcctgcgtggtcctgtttgtatttttagtttctttttctgattttttttcgcaaaaagataattttggggtttattcgtggagcagGATTGCAACGGCAAGGAAGTGAGCCTGGAAACCTACAAGGGGAAGGTCCTCCTTGTTGTTAACGTCGCCTCCAAATG

Basic information

species Zea mays
transcript GRMZM2G329144_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G329144_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g24380.1 (Oryza sativa), 3'ss of exon 1
gtgcggcgatccccatcccgagatcacgctc-ctgcgtggtcctgtt-tgtatttttagt--ttctttttctgattttttttcgcaaaaagataattttggggtttattcgtggagcagGATTGCAACGGCAAGGAAGTGAGCCTGGAAACCTACAAGGGGAAGGTCCTCCTTGTTGTTAACGTCGCCTCCAAATG
|| |||||||| ||  |||     | |   | | ||  | |   |    | ||||||  |  || |||||||  |||| |||          |  |||    |||| ||  | ||||||||||||||||||||||| ||||||||||| |  |||||||||||||| ||  | || || |||||||||||||||||
gtccggcgatctcccccccatctcctcttccgccgccggattacgcgacggatttttgctgattttttttctcgttttcttttttc------ttttttaattgttttttttttgagcagGATTGCAACGGCAAGGAGGTGAGCCTGGAGATGTACAAGGGGAAGGTGCTAATCGTCGTCAACGTCGCCTCCAAATG
















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|211085703|gb|FL420026.1|FL420026
EST:     GGGCGGCCGAATCCGTGCCGGAGACCTCCATACACGAATTCACCGTCAAG                         GATTGCAACGGCAAGGAA
genomic: GGGCGGCCGAATCCGTGCCGGAGACCTCCATACACGAATTCACCGTCAAGgtgcggcgat ... cgtggagcagGATTGCAACGGCAAGGAA
EST: gi|71441290|gb|DR822340.1|DR822340
EST:     GGGCGGCCGAATCCGTGCCGGAGACCTCCATACACGAATTCACCGTCAAG                         GATTGCAACGGCAAGGAAGTGAGCCTGGAAACCTACAAGGGGAAGGTCCTC
genomic: GGGCGGCCGAATCCGTGCCGGAGACCTCCATACACGAATTCACCGTCAAGgtgcggcgat ... cgtggagcagGATTGCAACGGCAAGGAAGTGAGCCTGGAAACCTACAAGGGGAAGGTCCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttttctgattttttttcgcaaaaagataattttggggtttattcgtggagcagGATTGCAACGGCAAGGAAGTGAGCCTGGAAACCTACAAGGGGAAGGTCCTCCTTGTTGTTAACGTCGCCTCCAAATG
    ttctgat  putative branch site (score: 3)
                                       tttattc  putative PPT
                     aaaaagataatttt  TA-rich tract