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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caatttggaaaactatatctttgtacatctcagtaatgaaaccatgtgtggcatgatatggaaggaggctgatttcaacggattttttttttgtgtgcagCTGGAAAGACTGAAAGATGAGAATCTGTCTCCTCTTCTTCCCCTAGACGTCAATCTAACTGACCCATCACTCAGTGGTTTGGAAAGGACATTGTCACAAC

Basic information

species Zea mays
transcript GRMZM2G179421_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G179421_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g21940.1 (Oryza sativa), 3'ss of exon 9
caatttggaaaactatatctttgtacatctcagtaatgaaac-catgtgtggcatgatatgga-aggaggctgatttcaacggattttttttt-tgtgtgcagCTGGAAAGACTGAAAGATGAGAATCTGTCTCCTCTTCTTCCCCTAGACGTCAATCTAACTGACCCATCACTCAGTGGTTTGGAAAGGACATTGTCACAAC
   | || | |   | | ||  | ||     | |  |  |    |    ||||||||||  || |  | | | ||    ||   | || | ||   | ||||| |||| ||||||||| |||||||||| ||||||||||||||||| ||| ||||||||| |||||||||||||||||||||||| ||| |||| ||||| |
-tgtgtgtatacacacaactaaggactatgaaattttacagtatagacttggcatgatacagataacaagtttata--gacatttcttgtgttgcatatgcagTTGGAGAGACTGAAAAATGAGAATCTTTCTCCTCTTCTTCCCCTGGACATCAATCTAATTGACCCATCACTCAGTGGTTTGGAGAGGGCATTATCACAGC
















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|6101978|gb|AW126448.1|AW126448
EST:     CTCAAGAGCACAAGAAATTAGCAAATGGATTCAACCTTTTCCAGAAGGAG                         CTGGAAAGACTGAAAGATGAGAATCTGTCTCCTCTTCTTCCCCTAGACGTC
genomic: CTCAAGAGCACAAGAAATTAGCAAATGGATTCAACCTTTTCCAGAAGGAGgtaatgacgg ... ttgtgtgcagCTGGAAAGACTGAAAGATGAGAATCTGTCTCCTCTTCTTCCCCTAGACGTC
EST: gi|6194857|gb|AW146961.1|AW146961
EST:     CTCAAGAGCACAAGAAATTAGCAAATGGATTCAACCTTTTCCAGAAGGAG                         CTGGAAAGACTGAAAGATGAGAATCTGTCTCCTCTTCTTCCCCTAGACGTC
genomic: CTCAAGAGCACAAGAAATTAGCAAATGGATTCAACCTTTTCCAGAAGGAGgtaatgacgg ... ttgtgtgcagCTGGAAAGACTGAAAGATGAGAATCTGTCTCCTCTTCTTCCCCTAGACGTC
EST: gi|211190018|gb|FL186108.1|FL186108
EST:     CTCAAGAGCACAAGAAATTAGCAAATGGATTCAACCTTTTCCAGAAGGAG                         CTGGAAAGACTGAAAGATGAGAATCTGTCTCCTCTTCTTCCCCTAGACGTC
genomic: CTCAAGAGCACAAGAAATTAGCAAATGGATTCAACCTTTTCCAGAAGGAGgtaatgacgg ... ttgtgtgcagCTGGAAAGACTGAAAGATGAGAATCTGTCTCCTCTTCTTCCCCTAGACGTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtggcatgatatggaaggaggctgatttcaacggattttttttttgtgtgcagCTGGAAAGACTGAAAGATGAGAATCTGTCTCCTCTTCTTCCCCTAGACGTCAATCTAACTGACCCATCACTCAGTGGTTTGGAAAGGACATTGTCACAAC
                     ggctgat  putative branch site (score: 4)
                                     ttttttttttgtgt  putative PPT
                                    attttttttttgtgt  TA-rich tract