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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttggcctgagaaatgtggacaatgatactactgtaaagtaatagtgagtattagcccttttttatgtttgagctaattactactacaaattgctttccagAACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATTGGGCTCCCGAAATTCAAG

Basic information

species Zea mays
transcript GRMZM2G179810_T03
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179810_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g40010.4 (Oryza sativa), 3'ss of exon 4
-ttggcctgagaaatg--tggac-aatgatacta-ctgtaaagtaatagtgagtattagcccttttttatgtttgagctaattactactacaaattgctttccagAACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATTGGGCTCCCGAAATTCAAG
  ||  | |  |  |   ||||  ||| ||| || || |     || |  || ||   |   |||   | |  |    ||  ||       || ||||||||||||||| |||||||| || || || |||||||||||| ||||||||||||| ||||| |||
actgttcgggcacttcactggatgaattataatatctttgtcccaagaacgaataactggattttggcacgactatcttaccta-----gaaatttgctttccagAACGCGCTGGAGCTGACGTTGTTGAGTGCGCGTGTCTCATTGGGCTCCCAAAATTTAAG
















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|211540437|gb|FL210078.1|FL210078
EST:     CCACTTGGTTGCGACCGGAGGGACACTCTGTGCTGCGATCAGGCTTCTAG                         AACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATTGGGCTCCCGA
genomic: CGACCTGGTTGCGACCGGAGGGACACTCTGTGCTGCGATCAGGCTTCTAGgtacgtgagc ... tgctttccagAACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATTGGGCTCCCGA
EST: gi|6527132|gb|AW216342.1|AW216342
EST:     CGACCTGGTTGCGACCGGAGGGACACTCTGTGCTGCGATCAGGCTTCTAG                         AACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATTGGGCTCCCGA
genomic: CGACCTGGTTGCGACCGGAGGGACACTCTGTGCTGCGATCAGGCTTCTAGgtacgtgagc ... tgctttccagAACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATTGGGCTCCCGA
EST: gi|30088016|gb|CB886221.1|CB886221
EST:     CGACCTGGTTGCGACCGGAGGGACACTCTGTGCTGCGATCAGGCTTCTAG                         AACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATTGGGCTCCCGA
genomic: CGACCTGGTTGCGACCGGAGGGACACTCTGTGCTGCGATCAGGCTTCTAGgtacgtgagc ... tgctttccagAACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATTGGGCTCCCGA
EST: gi|101394573|gb|EB819221.1|EB819221
EST:     CGACCTGGTTGCGACCGGAGGGACACTCTGTGCTGCGATCAGGCTTCTAG                         AACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATTGGGCTCCCGA
genomic: CGACCTGGTTGCGACCGGAGGGACACTCTGTGCTGCGATCAGGCTTCTAGgtacgtgagc ... tgctttccagAACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATTGGGCTCCCGA
EST: gi|60351100|gb|DN218073.1|DN218073
EST:     CGACCTGGTTGCGACCGGAGGGACACTCTGTGCTGCGATCAGGCTTCTAG                         AACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATTGGGCTCCCGA
genomic: CGACCTGGTTGCGACCGGAGGGACACTCTGTGCTGCGATCAGGCTTCTAGgtacgtgagc ... tgctttccagAACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATTGGGCTCCCGA
EST: gi|211542408|gb|FL173494.1|FL173494
EST:     CGACCTGGTTGCGACCGGAGG-ACACTCTGTGCTGCGATCAGGCTTCTAG                         AACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATCGGGCTCCCGA
genomic: CGACCTGGTTGCGACCGGAGGGACACTCTGTGCTGCGATCAGGCTTCTAGgtacgtgagc ... tgctttccagAACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATTGGGCTCCCGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagtattagcccttttttatgtttgagctaattactactacaaattgctttccagAACGTGCTGGAGCCGATGTGGTCGAGTGCGCGTGTGTCATTGGGCTCCCGAAATTCAAG
                         agctaat  putative branch site (score: 3)
                                            ttgctttcc  putative PPT
            ttttttatgtttga  TA-rich tract