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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacttgggattccacccattttcttaagtgttcagtggttgcttttcatggtgttcacaattattgtttgtatagGCTTTGGGAGCCTACTTATGAAGACTGCTTAAATTTGATTGCTCGGCTTCCACCAGTGGCTTCTTATGTTTACCGGAG

Basic information

species Zea mays
transcript GRMZM2G063909_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G063909_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os11g33240.2 (Oryza sativa), 3'ss of exon 10
gtaaacttgggatt----ccaccc-----attttcttaagtgttcagtggttgcttttcatggtgttca-----caattattgtttgtatagGCTTTGGGAGCCTACTTATGAAGACTGCTTAAATTTGATTGCTCGGCTTCCACCAGTGGCTTCTTATGTTTACCGGAG
|||  |||||||||    |  ||       ||   |||| |||||| | | |  | | |||| | || |     |  ||  | |||  ||||| | ||||||||||| |||||||| |||||||||||||| ||||| ||||||||||||||||| ||||||||||||||
gtatgcttgggatttatactgcctcaagagttgcattaattgttcaatagat-ttgtccatgttattgactgctctgttgctattttaatagGTTCTGGGAGCCTACCTATGAAGATTGCTTAAATTTGATAGCTCGCCTTCCACCAGTGGCTTCGTATGTTTACCGGAG

upper sequence: GRMZM2G063909_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os02g10070.1 (Oryza sativa), 3'ss of exon 10
gtaaacttgggattccacccattttcttaagtgt-tcagtggttg------cttttcatggtgttcacaattattgtttgtatagGCTTTGGGAGCCTACTTATGAAGACTGCTTAAATTTGATTGCTCGGCTTCCACCAGTGGCTTCTTATGTTTACCGGAG
|||  |||||||||    |    | |  || ||  | ||| ||||       ||| ||||   |   |   |  | |||  ||||| | ||||||||||| |||||||| |||||||||||||| ||||| |||||| |||||||||| ||||||||||||||
gtatgcttgggatttatactgcctccaaaattgcattagttgttgaatggattttccatgtactgacctggtgctattttaatagGTTCTGGGAGCCTACCTATGAAGATTGCTTAAATTTGATAGCTCGCCTTCCAGCAGTGGCTTCATATGTTTACCGGAG
















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|78088374|gb|DV516767.1|DV516767
EST:     TTGAGAGCGAATTTCAAAAAGCTTACGGCAATGGATTGCC-AAAATCAAA                         GCTTTGGGAGCCTACTTATGAAGACTGCTTAAATTTGATTGCTCGGCTTCC
genomic: TTGAGAGCGAATTTCAAAAAGCTTACGGCAATGGATTGCCCAAAATCAAAgtaaacttgg ... gtttgtatagGCTTTGGGAGCCTACTTATGAAGACTGCTTAAATTTGATTGCTCGGCTTCC
EST: gi|148965958|gb|EE016876.2|EE016876
EST:     TTGAGAGCGAATTTCAAAAAGCTTACGGCAATGGATTGCC-AAAATCAAA                         GCTTTGGGAGCCTACTTATGAAGACTGCTTAAATTTGATTGCTCGGCTTC-
genomic: TTGAGAGCGAATTTCAAAAAGCTTACGGCAATGGATTGCCCAAAATCAAAgtaaacttgg ... gtttgtatagGCTTTGGGAGCCTACTTATGAAGACTGCTTAAATTTGATTGCTCGGCTTCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcttaagtgttcagtggttgcttttcatggtgttcacaattattgtttgtatagGCTTTGGGAGCCTACTTATGAAGACTGCTTAAATTTGATTGCTCGGCTTCCACCAGTGGCTTCTTATGTTTACCGGAG
                                      aattattgtttgtata  TA-rich tract