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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcaatacagcaaatcggaacatgtctggttgtattgttcctgtgtatggtacggagttctgatcaccctaaacatgtgcatgtgacctgtgtttcctcagGAGCATAGAGTAAGAACGAGGCATGGCTCTCTTTCGGTTTCTGTGTATGGAGACGAGGACAAGCCCGCGCTCGTAACTTATCCGGATGTAGCCTTAAATC

Basic information

species Zea mays
transcript GRMZM2G413857_T03
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G413857_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g09670.1 (Oryza sativa), 3'ss of exon 1
gcaatacagcaaatcggaac-atgtctggttgtattgttcctgtgtatggtacggagttctgatcaccctaaacatgtgcatgtgacctgtgtttcct---cagGAGCATAGAGTAAGAACGAGGCATGGCTCTCTTTCGGTTTCTGTGTATGGAGACGAGGACAAGCCCGCGCTCGTAACTTATCCGGATGTAGCCTTAAATC
|  |         || ||   ||   |  || || | ||  |    || | |  |   ||  ||| |  |   | |     |||| |||||||||  |   ||||| ||  ||||  |||| ||  |||||||| | || |||||||| | |||||| || |||||||| |||||| |||| || |||||||||||  ||||| 
gttaattgctggttctgattgattattcattatactattgtttcaaataggattg---tcaaatcccaatgggc-taaatttgtgtcctgtgtttttttaccagGAACACCGAGTGCGAACCAGATATGGCTCTGTATCTGTTTCTGTATTTGGAGATGAAGACAAGCCGGCGCTCATAACATACCCGGATGTAGCTCTAAATT
















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|89761919|gb|DY689741.1|DY689741
EST:     CCAGCGGCTCCGTGTCGGTCGACGTCGAGCGGATCTTCTTCGGCGGCAAG                         GAGCATAGAGTAAGAACGAGGCATGGCTCTCTTTCGGTTTCTGTGTATGGA
genomic: CCAGCGGCTCCGTGTCGGTCGACGTCGAGCGGATCTTCTTCGGCGGCAAGgtccgtgcgc ... gtttcctcagGAGCATAGAGTAAGAACGAGGCATGGCTCTCTTTCGGTTTCTGTGTATGGA
EST: gi|211370584|gb|FL353380.1|FL353380
EST:     CCAGCGGCTCCGTGTCGGTCGACGTCGAGCGGATCTTCTTCGGCGGCAAG                         GAGCATCGAGTAAGAACGAGGCATGGCTCTCTTTCGGTTTCTGTGTATGGA
genomic: CCAGCGGCTCCGTGTCGGTCGACGTCGAGCGGATCTTCTTCGGCGGCAAGgtccgtgcgc ... gtttcctcagGAGCATAGAGTAAGAACGAGGCATGGCTCTCTTTCGGTTTCTGTGTATGGA
EST: gi|71443344|gb|DR824394.1|DR824394
EST:     CCAGCGGCTCCGTGTCGGTCGACGTCGAGCGGATCTTCTTCGGCGGCAAG                         GAGCATAGAGTAAGAACGAGGCATGGCTCTCTTTCGGTTTCTGTGTATGGA
genomic: CCAGCGGCTCCGTGTCGGTCGACGTCGAGCGGATCTTCTTCGGCGGCAAGgtccgtgcgc ... gtttcctcagGAGCATAGAGTAAGAACGAGGCATGGCTCTCTTTCGGTTTCTGTGTATGGA
EST: gi|71443847|gb|DR824897.1|DR824897
EST:     CCAGCGGCTCCGTGTCGGTCGACGTCGAGCGGATCTTCTTCGGCGGCAAG                         GAGCATAGAGTAAGAACGAGGCATGGCTCTCTTTCGGTTTCTGTGTATGGA
genomic: CCAGCGGCTCCGTGTCGGTCGACGTCGAGCGGATCTTCTTCGGCGGCAAGgtccgtgcgc ... gtttcctcagGAGCATAGAGTAAGAACGAGGCATGGCTCTCTTTCGGTTTCTGTGTATGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atggtacggagttctgatcaccctaaacatgtgcatgtgacctgtgtttcctcagGAGCATAGAGTAAGAACGAGGCATGGCTCTCTTTCGGTTTCTGTGTATGGAGACGAGGACAAGCCCGCGCTCGTAACTTATCCGGATGTAGCCTTAAATC
                    ccctaaa  putative branch site (score: 3)
                                            tgtttcctc  putative PPT
                       taaacat  TA-rich tract