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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacgcccgcgctggcctgaagaacctctactgtatctgtatcagttggtttcagcgtttcgcctccggttttctgagagctgtatctgcctgccgatcctttcgcccgtgcagGTGCCGCCGGCCGAGCTCGAGGCTCTGCTCGTCGCCCACCCGTCCATCGCCGACGCGGCCGTCGTCCC

Basic information

species Zea mays
transcript GRMZM2G054013_T05
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G054013_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os02g46970.1 (Oryza sativa), 3'ss of exon 3
gtaacgcccgcgctggcctgaagaacctctactgtatctgtatcagttggtttcagcgt-ttcgcctccggttttctgagagctgtatctgcctgccgatcctttcgcccgtgcagGTGCCGCCGGCCGAGCTCGAGGCTCTGCTCGTCGCCCACCCGTCCATCGCCGACGCGGCCGTCGTCCC
                                            | ||     |||     |   |  | ||||||||| |  |    |||  |  | ||  | |    | |||||||||||||||||||||| ||| | |||||| |||| |||||||||||||| ||||| |||||||||||
------------------------------------------gtaattaacagcaggacacttagcatcagttttctgataattcgcactg--taactattgtct-attcatgcagGTGCCGCCGGCCGAGCTGGAGTCGCTGCTCATCGCTCACCCGTCCATCGCTGACGCCGCCGTCGTCCC
















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|50334551|gb|CO529677.1|CO529677
EST:     AGGAGCTCATCAAGTTCAAGGGCTTCCAG                         GTGCCGCCGGCCGAGCTCGAGGCTTTGCTCGTCGCCCACCCGTCCATCGCC
genomic: AGGAGCTCATCAAGTTCAAGGGCTTCCAGgtaacgcccg ... gcccgtgcagGTGCCGCCGGCCGAGCTCGAGGCTCTGCTCGTCGCCCACCCGTCCATCGCC
EST: gi|18179985|gb|BM381195.1|BM381195
EST:     GTTCAAGGGCTTCCAG                         GTGCCGCCGGCCGAGCTCAAGGCTCTGCTCGTCGCCCACCCGTCCATCGCC
genomic: GTTCAAGGGCTTCCAGgtaacgcccg ... gcccgtgcagGTGCCGCCGGCCGAGCTCGAGGCTCTGCTCGTCGCCCACCCGTCCATCGCC
EST: gi|149084174|gb|EE173585.2|EE173585
EST:     GAGCTCATCAAGTTCAAGGGCTTCCAG                         GTGCCGCCGGCCGAGCTCGAGGCTCTGCTCGTCGCCCACCCGTCCATCGCC
genomic: GAGCTCATCAAGTTCAAGGGCTTCCAGgtaacgcccg ... gcccgtgcagGTGCCGCCGGCCGAGCTCGAGGCTCTGCTCGTCGCCCACCCGTCCATCGCC
EST: gi|91048670|gb|EB159088.1|EB159088
EST:     AGGAGCTCATCAAGTTCAAGGGCTTCCAG                         GTGCCGCCGGCCGAGCTCGAGGCTCTGTTCGTCGCCCACCCGTCCATCGCC
genomic: AGGAGCTCATCAAGTTCAAGGGCTTCCAGgtaacgcccg ... gcccgtgcagGTGCCGCCGGCCGAGCTCGAGGCTCTGCTCGTCGCCCACCCGTCCATCGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcgcctccggttttctgagagctgtatctgcctgccgatcctttcgcccgtgcagGTGCCGCCGGCCGAGCTCGAGGCTCTGCTCGTCGCCCACCCGTCCATCGCCGACGCGGCCGTCGTCCC
                                      tcctttcgccc  CT-rich tract