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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttctctctctctctctacaattatcactacctgctgctccctcatgcaccgtgctcaaatctgaccaaagtgggttctgctgactgttttttgtgtttttttggggtctctcgatcttctctggatgcagGCAAGATTAAGATCGGAATCAACG

Basic information

species Zea mays
transcript GRMZM2G046804_T02
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G046804_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os08g03290.3 (Oryza sativa), 3'ss of exon 1
--------gtttctctctctctctctacaattatcactacctgctgctccctcatgcaccgtgctcaaatctgaccaaagtgggttctgctgactgttttttgtgtttttttggggtctctcgatcttctctggatgcagGCAAGATTAAGATCGGAATCAACG
        | |   |||    ||     ||||  | |    || |     ||  |||  || |  |  ||||||   | ||   || | |||| | ||||| |||  ||||  ||     | |   || |  ||| ||||||||||||||||||||||||||||
gtaattatgctcacctccgaatcgaattaattccc-ccgtttgattactgctggtgcttcgcgtcctgatctgattgatgtttttttttctgatt-tttttggtgaattttctgg-----tggtgtttttggggacgcagGCAAGATTAAGATCGGAATCAACG
















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|211540838|gb|FL337854.1|FL337854
EST:     TGGGTAATTCCTCGCTCCCGGATTCAGCGTCGG                         GCAAGATTAAGATCGGAATCAACG
genomic: TGGGTAATTCCTCGCTCCCGGATTCAGCGTCGGgtttctctct ... ctggatgcagGCAAGATTAAGATCGGAATCAACG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgctgactgttttttgtgtttttttggggtctctcgatcttctctggatgcagGCAAGATTAAGATCGGAATCAACG
  tgctgac  putative branch site (score: 2)
                               tctctcgatcttctct  putative PPT
           ttttttgtgttttttt  TA-rich tract