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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gggggggggaggcgggagacacattcctacgctgaagggctgcagcagaatatgtgatatgctcatattgatcattttcccttcattttgtacctgcaagGCTTACTGGCAATTACACTAGGTGCTGGAAGTAGTTCGCACGAAATAATGGATGAGTCACATCCACATCTTTTGAGAGTTCTCCAAACTTGGCCTGACGC

Basic information

species Zea mays
transcript GRMZM2G057412_T04
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G057412_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g33590.2 (Oryza sativa), 3'ss of exon 4
--gggggggggaggcggg--agacacattcctacgctgaagggctgcagcagaatatgtgatatgctcatattgatcattttcccttcattttgtacctgcaagGCTTACTGGCAATTACACTAGGTGCTGGAAGTAGTTCGCACGAAATAATGGATGAGTCACATCCACATCTTTTGAGAGTTCTCCAAACTTGGCCTGACGC
    |         | |   |     |||| || | | | |   ||||||||||||| || | | || |  ||      |||   |   ||||  || ||| |||||||||||| |||||||| ||||||||||||||||| || |||||||||||||| || | ||  || ||| ||||||| ||||||||||||||||| ||
gttagtatccttctctgtccatgggtattcgta-gtttaggctgtgcagcagaatatctgctgttctgaactt-----cttttgttcttttttaaacttgcgagGCTTACTGGCCATTACACTTGGTGCTGGAAGTAGTTCTCATGAAATAATGGATGAATCCCGTCTGCAGCTTCTGAGAGTCCTCCAAACTTGGCCTGATGC
















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|89759048|gb|DY687994.1|DY687994
EST:     AATTAAAAGGGGATCTGTAAAAGAGGTGTGTCTGGCTTGTCGCTGCATTG                         GCTTACTGGCAATTACACTAGGTGCTGGAAGTAGTTCGCACGAAATAATGG
genomic: AATTAAAAGGGGATCTGTAAAAGAGGTGTGTCTGGCTTGTCGCTGCATTGgttagtattc ... tacctgcaagGCTTACTGGCAATTACACTAGGTGCTGGAAGTAGTTCGCACGAAATAATGG
EST: gi|101398967|gb|EB821356.1|EB821356
EST:     AATTAAAAGGGGATCTGTAAAAGAGGTGTGTCTGGCTTGTCGCTGCATTG                         GCTTACTGGCAATTACACTAGGTGCTGGAAGTAGTTCGCACGAAATAATGG
genomic: AATTAAAAGGGGATCTGTAAAAGAGGTGTGTCTGGCTTGTCGCTGCATTGgttagtattc ... tacctgcaagGCTTACTGGCAATTACACTAGGTGCTGGAAGTAGTTCGCACGAAATAATGG
EST: gi|211098028|gb|FL078453.1|FL078453
EST:     ATTAAAAAGGGGATCTGTAAAAGAGGTGTGTCTGGCTTGTCGCTGCATTG                         GCTTACTGGCAATTACACTAGGGTGCTGGAAGTAGTTCGCACGAAATAATG
genomic: ATTAAAA-GGGGATCTGTAAAAGAGGTGTGTCTGGCTTGTCGCTGCATTGgttagtattc ... tacctgcaagGCTTACTGGCAATTACACTAGG-TGCTGGAAGTAGTTCGCACGAAATAATG
EST: gi|89759388|gb|DY688240.1|DY688240
EST:     AATTAAAAGGGGATCTGTAAAAGAGGTGTGTCTGGCTTGTCGCTGCATTG                         GCTTACTGGCAATTACACTAGGTGCTGGAAGTAGTTCGCACGAAATAATGG
genomic: AATTAAAAGGGGATCTGTAAAAGAGGTGTGTCTGGCTTGTCGCTGCATTGgttagtattc ... tacctgcaagGCTTACTGGCAATTACACTAGGTGCTGGAAGTAGTTCGCACGAAATAATGG
EST: gi|93281098|gb|EB673362.1|EB673362
EST:     AATTAAAAGGGGATCTGTAAAAGAGGTGTGTCTGGCTTGTCGCTGCATTG                         GCTTACTGGCAATTACACTAGGTGCTGGAAGTAGTTCGCACGAAATAATGG
genomic: AATTAAAAGGGGATCTGTAAAAGAGGTGTGTCTGGCTTGTCGCTGCATTGgttagtattc ... tacctgcaagGCTTACTGGCAATTACACTAGGTGCTGGAAGTAGTTCGCACGAAATAATGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagaatatgtgatatgctcatattgatcattttcccttcattttgtacctgcaagGCTTACTGGCAATTACACTAGGTGCTGGAAGTAGTTCGCACGAAATAATGGATGAGTCACATCCACATCTTTTGAGAGTTCTCCAAACTTGGCCTGACGC
                    tattgat  putative branch site (score: 3)
                             ttttcccttcattttg  putative PPT
                   atattgatcatttt  TA-rich tract