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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgtgccgtgccctgccgcccggatgcgtgcgtgtacataccgtccatgagacgcactaacacgcgttgctcatcgctctgagcctctgacctcctcctcctcctcctcctgcatattcggcagcagGGGCTCGAGCCATGCTCGCCGACGGCCTGCTCGCCACGGCAAACGTGGAGACGGTGGCCGAGGCGCACGTCCACGCGTACGAGGCGATGGGCGACAACAC

Basic information

species Zea mays
transcript GRMZM2G179685_T04
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179685_T04 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g45200.1 (Oryza sativa), 3'ss of exon 4
gtccgtgccgtgccctgccg-cccggatgcgtgcgtgtacataccgtccatgagacgcactaacacgcgttgctcatcgctctgagcctctgacctcctcctcctcctcctcctgcatattcggcagcagGGGCTCGAGCCATGCTCGCCGACGGCCTGCTCGCCACGGCAAACGTGGAGACGGTGGCCGAGGCGCACGTCCACGCGTACGAGGCGATGGGCGACAACAC
         || | || | | |   ||| || || |||| |   ||   ||  ||   |  |||| |   |||      || || || | ||   | | |     | |  || ||| | |    |  |||||||||| |||||||||||||||||||||||||| ||||| | ||||||||||||||| |||||||||||||  | ||||||||||||||||||||||||
---------gtacactacaggcttcgatacgagcatgtaaactacg---atcggagaaaggaacatggtgtgc------ctttgtgcttgtgcagtacacactgacatg-tcttgcgtgt----cgacagGGGCTCGCGCCATGCTCGCCGACGGCCTGCTCGCGACGGCGAGCGTGGAGACGGTGGCGGAGGCGCACGTCCGGGTGTACGAGGCGATGGGCGACAACAC
















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|149097654|gb|EE183551.2|EE183551
EST:     TCCGGGGTTCCGCCGCCGCAACTCCACCGCGTCCATCGCGTATCTCAAAG                         GGGCTCGAGCCATGCTCGCCGACGGCCTGCTCGCCACGGCAAACGTGGAGA
genomic: TCCGGGGTTCCGCCGCCGCAACTCCACCGCGTCCATCGCGTATCTCAAAGgtccgtgccg ... tcggcagcagGGGCTCGAGCCATGCTCGCCGACGGCCTGCTCGCCACGGCAAACGTGGAGA
EST: gi|211490946|gb|FL289327.1|FL289327
EST:     CGTCCATCGCGTATCTCAAAG                         GGGCTCGAGCCATGCTCGCCGACGGCCTGCTCGCCACGGCAAACGTGGARA
genomic: CGTCCATCGCGTATCTCAAAGgtccgtgccg ... tcggcagcagGGGCTCGAGCCATGCTCGCCGACGGCCTGCTCGCCACGGCAAACGTGGAGA
EST: gi|110963650|gb|EE183550.1|EE183550
EST:     TCCGGGGTTCCGCCGCCGCAACTCCACCGCGTCCATCGCGTATCTCAAAG                         GGGCTCGAGCCATGCTCGCCGACGGCCTGCTCGCCACGGCAAACGTGGAGA
genomic: TCCGGGGTTCCGCCGCCGCAACTCCACCGCGTCCATCGCGTATCTCAAAGgtccgtgccg ... tcggcagcagGGGCTCGAGCCATGCTCGCCGACGGCCTGCTCGCCACGGCAAACGTGGAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcgctctgagcctctgacctcctcctcctcctcctcctgcatattcggcagcagGGGCTCGAGCCATGCTCGCCGACGGCCTGCTCGCCACGGCAAACGTGGAGACGGTGGCCGAGGCGCACGTCCACGCGTACGAGGCGATGGGCGACAACAC
            ctctgac  putative branch site (score: 3)
           cctctgacctcctcct  CT-rich tract
                                         atatt  TA-rich tract