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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gcaagcacatgttctttcatgcatcatcgggcttcctcaattaatcctacttcctatagttttgcgagcaaaccatctcagattgatagctatttctgcagCTAGTTTATAACAGGAGCGATGAAGTTGGTATTGTCCTCTTTGGTACTAAAG

Basic information

species Zea mays
transcript GRMZM2G137968_T03
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G137968_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os03g63920.1 (Oryza sativa), 3'ss of exon 2
gcaagcacatgttctttc----------------atgc-------atcatcgggcttcct-caattaatcctacttccta--tagtt--ttgcgagcaaaccatctcagattgatagctatttctgcagCTAGTTTATAACAGGAGCGATGAAGTTGGTATTGTCCTCTTTGGTACTAAAG
|||||||||   | ||||                ||||       |  | | |||  ||| ||||| ||| ||  |  ||   | |      | ||| ||||  |     ||     |  | |||||||||||||||||| ||||| |||||  | ||| ||||||| ||||| |||||||
gcaagcacacactatttccattttaacttcccagatgcaaatgctactacctggccacctgcaattcatcataacttgtaaccaatcagcctcaagctaacccccctgccttttcccccctctctgcagCTAGTTTATAATAGGAGTGATGAGATCGGTGTTGTCCTTTTTGGAACTAAAG
















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|89250569|gb|DY622355.1|DY622355
EST:     GAGTGCTGCTAGAGGTGAAGAACGTATGCTTGACTCTTGTGCATAAGAAG                         CTAGTTTATAACAGGAGCGATGAAGTTGGTATTGTCCTCTTTGGTACTAAA
genomic: GAGTGCTGCTAGAGGTGAAGAACGTATGCTTGACTCTTGTGCATAAGAAGgcaagcacat ... atttctgcagCTAGTTTATAACAGGAGCGATGAAGTTGGTATTGTCCTCTTTGGTACTAAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctacttcctatagttttgcgagcaaaccatctcagattgatagctatttctgcagCTAGTTTATAACAGGAGCGATGAAGTTGGTATTGTCCTCTTTGGTACTAAAG
                                  gattgat  putative branch site (score: 4)
                                           ctatttct  putative PPT
        tatagtttt  TA-rich tract