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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgaggtaactaatgggagcactcaccattgtgcagaatgagtttgcctcttctattttgtagaatctggacatctaaaatggtgtatggcttttgcagTTCTGTTGGATCATGGAATTTATAGAGAATTGGACCAAAAGTTCAGATTGGACTATTGTCGGCTATGGAAAGCACTGATATTGTTGGATTCAAACAAAAT

Basic information

species Zea mays
transcript GRMZM2G040720_T03
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G040720_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os11g34750.1 (Oryza sativa), 3'ss of exon 12
-tttgaggtaactaatgggagcactcaccattgtgcagaatgagtttgcctcttctattttgtagaatctggacatc-taaaatggtgtatggcttttgcagTTCTGTTGGATCATGGAATTTATAGAGAATTGGACCAAAAGTTCAGATTGGACTATTGTCGGCTATGGAAAGCACTGATATTGTTGGATTCAAACAAAAT
       |||   | |      | || |  |  |        | ||||     |    |||  |  || |  |  |  | || || |  ||   ||||||||| ||| | |||||||||||||||| |||||| |||||||||||||||||||||||||||| ||| ||||||||  ||||||||||||||||  | |||||
gaagagagtagacacttaatatattc-cagtcattagattctattttgtaaagtgagctttaaattatttttagttggttaagtgatccata-tttttgcagTGCTGCTTGATCATGGAATTTATAAAGAATTAGACCAAAAGTTCAGATTGGACTATTGTCAGCTGTGGAAAGCGTTGATATTGTTGGATTCTCAAAAAAT

upper sequence: GRMZM2G040720_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os11g34830.1 (Oryza sativa), 3'ss of exon 9
-tttgaggtaactaatgggagcactcaccattgtgcagaatgagtttgcctcttctattttgtagaatctggacatc-taaaatggtgtatggcttttgcagTTCTGTTGGATCATGGAATTTATAGAGAATTGGACCAAAAGTTCAGATTGGACTATTGTCGGCTATGGAAAGCACTGATATTGTTGGATTCAAACAAAAT
       |||   | |      | || |  |  |        | |||      |    |||  | ||| |  |  |  | || || |  ||   ||||||||| ||| | |||||||||||||||| |||||| |||||||||||||||||||||||||||| ||| ||||||||  ||||||||||||||||  | |||||
gaagagagtagacacttaatatattc-cagtcattagattctattttataaagtgagctttaaataatttttagttggttaagtgatccata-tttttgcagTGCTGCTTGATCATGGAATTTATAAAGAATTAGACCAAAAGTTCAGATTGGACTATTGTCAGCTGTGGAAAGCGTTGATATTGTTGGATTCTCAAAAAAT
















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|9824900|gb|BE574997.1|BE574997
EST:     TCCTGGAAATATATTAGTTTCTCCTGAAGGCCATGGGAAATTTTCACTAG                         TTCTGTTGGATCATGGAATTTATAGAGAATTGGACCAAAAGTTCAGATTGG
genomic: TCCTGGAAATATATTAGTTTCTCCTGAAGGCCATGGGAAATTTTCACTAGgtactcattt ... gcttttgcagTTCTGTTGGATCATGGAATTTATAGAGAATTGGACCAAAAGTTCAGATTGG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcctcttctattttgtagaatctggacatctaaaatggtgtatggcttttgcagTTCTGTTGGATCATGGAATTTATAGAGAATTGGACCAAAAGTTCAGATTGGACTATTGTCGGCTATGGAAAGCACTGATATTGTTGGATTCAAACAAAAT
                            atctaaa  putative branch site (score: 3)
                                              cttttgc  putative PPT
      ttctatttt  TA-rich tract