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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactagctagatcatctcttgtttattttcaatctgaaagttacatcaaactgagaagattgatcgatctgttttgcaaatgaacgaatgaacagATGCAAGCGGAGTTGCAGTTCCCGTCTCCTTTGGTGCCTGCGCGAGAGGTGGTGTTCTTCAGGTACTGCGTGCACAACGGCGACGAGGGGACCTGGTCCC

Basic information

species Zea mays
transcript GRMZM2G123140_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G123140_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os10g42490.1 (Oryza sativa), 3'ss of exon 7
---gtaactagctagatcatctcttgtttattttcaatctga-aagttacatcaaactgagaagattgatcgatctgttttgcaaatgaacgaatgaacagATGCAAGCGGAGTTGCAGTTCCCGTCTCCTTTGGTGCCTGCGCGAGAGGTGGTGTTCTTCAGGTACTGCGTGCACAACGGCGACGAGGGGACCTGGTCCC
    | |||| || ||| |   ||    || |    ||     |  |||  |     || || |  ||     |    |  ||     |         ||||||||||| ||| ||||||||  ||| ||| ||||| | ||||| ||||||||||||||| | |||||||||||||||| ||||||||||| |||| |  
gtaattactaact-gattactactcccctactactgattgattagattagttgtttttgggatggatggggactgaaatgcgcgtggtacatggcatgcagATGCAAGCAGAGGTGCAGTTCTTGTCGCCTCTGGTGGCGGCGCGCGAGGTGGTGTTCTTCCGTTACTGCGTGCACAACGCCGACGAGGGGAGCTGGGCGA
















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|149102263|gb|EE188158.2|EE188158
EST:     TAAACCATGGAGCTGCATCTGGTCATATGGGCAGTGGATCTCTCCTCTTG                         ATGCAAGCGGAGTTGCAGTTCCCGTCTCCTTTGGTGCCTGCGCGAGAGGTG
genomic: TAAACCATGGAGCTGCATCTGGTCATATGGGCAGTGGATCTCTCCTCTTGgtaactagct ... gaatgaacagATGCAAGCGGAGTTGCAGTTCCCGTCTCCTTTGGTGCCTGCGCGAGAGGTG
EST: gi|149083873|gb|EE173247.2|EE173247
EST:     TAAACCATGGAGCTGCATCTGGTCATATGGGCAGTGGATCTCTCCTCTTG                         ATGCAAGCGGAGTTGCAGTTCCCGTCTCCTTTGGTGCCTGCGCGAGAGGTG
genomic: TAAACCATGGAGCTGCATCTGGTCATATGGGCAGTGGATCTCTCCTCTTGgtaactagct ... gaatgaacagATGCAAGCGGAGTTGCAGTTCCCGTCTCCTTTGGTGCCTGCGCGAGAGGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttacatcaaactgagaagattgatcgatctgttttgcaaatgaacgaatgaacagATGCAAGCGGAGTTGCAGTTCCCGTCTCCTTTGGTGCCTGCGCGAGAGGTGGTGTTCTTCAGGTACTGCGTGCACAACGGCGACGAGGGGACCTGGTCCC
                 gattgat  putative branch site (score: 4)
                                     aaatgaa  TA-rich tract