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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggatgtcccttgcacgtttctgtgccttcagccgtttttgtttatttccgacatacagatgaactggttaagccactttctatttcctattgttgtgcagATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAG

Basic information

species Zea mays
transcript GRMZM5G851405_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G851405_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os09g17850.1 (Oryza sativa), 3'ss of exon 1
ggatgtcccttgcacgtttctgtgccttcagccgtttttgtttatttccgacatacagatgaactggttaa---gccactttctatttccta-ttgttgtgcagATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAG
    | |  || | |  | || |  ||    |         || |||  || ||| | || |  |   | |      || || | ||   |  ||||  |||||||||||| |||||||| || ||||| |||||||||||| | |
----gcctttttctctatacttttgctctgtctagcaccaattcttttggatatataaattatttaacttacatattaccttttgttctttccttgtgttgcagATGCTGGCGTTGAGGCTAACGAGTGCATGAAAGTGTTTATTG
















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|211157917|gb|FL378567.1|FL378567
EST:     CACCGCGACCGGTACCAAGAAGCGCCGCCGCGTCTTCTTCTCCGACACCG                         ATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAG
genomic: CACCGCCACCGGTACCAAGAAGCGCCGCCGCGTCTTCTTCTCCGACACCGgtaccaaact ... tgttgtgcagATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAG
EST: gi|76290309|gb|DV029877.1|DV029877
EST:     CACCGCCACCGGTACCAAGAAGCGCCGCCGCGTCTTCTTCTCCGACACCG                         ATGCTGGTGTTGAGGCAAATGAGTGTATGA
genomic: CACCGCCACCGGTACCAAGAAGCGCCGCCGCGTCTTCTTCTCCGACACCGgtaccaaact ... tgttgtgcagATGCTGGTGTTGAGGCAAATGAGTGTATGA
EST: gi|211393307|gb|FL420230.1|FL420230
EST:     CACCGCCACCGGTACCAAGAAGCGCCGCCGCGTCTTCTTCTCCGACACCG                         ATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAGTATGGAAT
genomic: CACCGCCACCGGTACCAAGAAGCGCCGCCGCGTCTTCTTCTCCGACACCGgtaccaaact ... tgttgtgcagATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAGTATGGAAT
EST: gi|211343698|gb|FL394268.1|FL394268
EST:     CACCGCCACCGGTACCAAGAAGCGCCGCCGCGTCTTCTTCTCCGACACCG                         ATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAGTATGGAAT
genomic: CACCGCCACCGGTACCAAGAAGCGCCGCCGCGTCTTCTTCTCCGACACCGgtaccaaact ... tgttgtgcagATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAGTATGGAAT
EST: gi|211437212|gb|FL420722.1|FL420722
EST:     CACCGCCACCGGTACCAAKAAGCGCCGCCGCGTCTTCTTCTCCGACACCG                         ATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAG
genomic: CACCGCCACCGGTACCAAGAAGCGCCGCCGCGTCTTCTTCTCCGACACCGgtaccaaact ... tgttgtgcagATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAG
EST: gi|71766135|gb|DR964072.1|DR964072
EST:     CACCGCCACCGGTACCAAGAAGCGCCGCCGCGTCTTCTTCTCCGACACCG                         ATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAG
genomic: CACCGCCACCGGTACCAAGAAGCGCCGCCGCGTCTTCTTCTCCGACACCGgtaccaaact ... tgttgtgcagATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAG
EST: gi|211202431|gb|FL416111.1|FL416111
EST:     CACCGCCACCGGTACCAAGAAGCGCCGCCGCGTCTTCTTCTCCGACACCG                         ATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAG
genomic: CACCGCCACCGGTACCAAGAAGCGCCGCCGCGTCTTCTTCTCCGACACCGgtaccaaact ... tgttgtgcagATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttccgacatacagatgaactggttaagccactttctatttcctattgttgtgcagATGCTGGTGTTGAGGCAAATGAGTGTATGAAAGTGTTTCTAG
                              ctttctatttcctatt  CT-rich tract
                               tttctattt  TA-rich tract