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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcgaggcagcccgcttctcccattctccggacccagactcaccctcgccgagtgtggactaacgaagtccaggctgtcgccctcgacctcgatgtgctgcagATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCAGGGAGGCCGCCAAGCGCAACGACATGGGATCCGCCAAG

Basic information

species Zea mays
transcript GRMZM2G042552_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G042552_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g01810.1 (Oryza sativa), 3'ss of exon 1
gcgaggcagcccgcttctcccattctccggacccagactcaccctcgccgagtgtggactaacgaagtccaggctgtcgccctcgacctcgatgtgctgcagATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCAGGGAGGCCGCCAAGCGCAACGACATGGGATCCGCCAAG
  |  |  |     |||| ||||||||    |   ||   | |  | ||     |  |   | || |   | | |       |  | |  ||  |   |||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||| ||||| ||||||
--gttggggtttcattcttccattctct---cttggatctatctgc-ccttccatacagcgatgatgctgatggt-------tgaatccggagctagcgcagATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGTCCATCAGGGAGGCCGCCAAGCGCAACGACATCGGATCGGCCAAG
















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|87154541|gb|DY399330.1|DY399330
EST:     GCAGCGCCGCCTCCGCAACGAGGGCCGCAACATCGACCGGCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCTGGGAGGCCGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGGGCCGCAACATCGACCGGCAGATCCGAGgcgaggcagc ... tgtgctgcagATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCAGGGAGGCCGCCA
EST: gi|76931381|gb|DV172714.1|DV172714
EST:     GCAGCGCCGCCTCCGCAACGAGGGCCGCAACATCGACCGGCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCAGGGAGGCCGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGGGCCGCAACATCGACCGGCAGATCCGAGgcgaggcagc ... tgtgctgcagATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCAGGGAGGCCGCCA
EST: gi|76293382|gb|DV032950.1|DV032950
EST:     CATCGACCGGCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCAGGGAGGCCGCCA
genomic: CATCGACCGGCAGATCCGAGgcgaggcagc ... tgtgctgcagATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCAGGGAGGCCGCCA
EST: gi|149039515|gb|EE046658.2|EE046658
EST:     GCAGCGCCGCCTCCGCAACGAGGGCCGCAACATCGACCGGCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCAGGGAGGCCGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGGGCCGCAACATCGACCGGCAGATCCGAGgcgaggcagc ... tgtgctgcagATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCAGGGAGGCCGCCA
EST: gi|211061419|gb|FL334691.1|FL334691
EST:     GCAGCGCCGCCTCCGCAACGAGGGCCGCAACATCGACCGGCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCAGGGAGGCCGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGGGCCGCAACATCGACCGGCAGATCCGAGgcgaggcagc ... tgtgctgcagATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCAGGGAGGCCGCCA
EST: gi|211354155|gb|FL091860.1|FL091860
EST:     GCAGCGCCGCCTCCGCAACGAGGGCCGCAACATCGACCGGCAGATCCGAG                         ATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCAGGGAGGCCGCCA
genomic: GCAGCGCCGCCTCCGCAACGAGGGCCGCAACATCGACCGGCAGATCCGAGgcgaggcagc ... tgtgctgcagATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCAGGGAGGCCGCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccgagtgtggactaacgaagtccaggctgtcgccctcgacctcgatgtgctgcagATGTGCAGAGGGAGGAGAAGAAGGTGGAGAAGGCCATCAGGGAGGCCGCCAAGCGCAACGACATGGGATCCGCCAAG
         gactaac  putative branch site (score: 1)