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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaatactctgtatgtccacattctaaagggcttggtcattgcgatgccaaatacttatattttgctagatggcaagctaatttactgaactttttttgttcccatcttgagaaggtatttctaattatatggccttctggtgcttttgctaaattttctctcattttttgccatcctattgtttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCAATCCCTAATACAAATGAGTCCCACTCGGTTCAAATTATTTTGCCTCAGA

Basic information

species Zea mays
transcript GRMZM2G435373_T02
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G435373_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os05g23860.1 (Oryza sativa), 3'ss of exon 9
gtgaatactctgta-tgtccacattctaaagggcttggtcattgcgatgccaaatacttatatt---ttgctagatggcaagctaatttactgaactttttttgttcccatcttgagaaggtatttctaattatatggccttctggtgcttttgctaaattttctctcattttttgccatcctattgtttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCAATCCCTAATACAAATGAGTCCCACTCGGTTCAAATTATTTTGCCTCAGA
|| |||  ||| |  |||   || | ||     |      |||    | |   ||  | || |    || |||||||     ||    | || |||   ||     |  || |        |  ||||     |       |   |   ||||  ||| |     | |||||  ||   |       ||| | |||||||||||||||| || | |||||  || ||||||||||| ||||||||||||||  | |  |||||||| || ||||| || || ||||||||||| ||||
gttaattttctttcctgtattcaatttatttaccacatgaattttctttcagtatgttcatttaggattcctagatgatgtacttccat-cttaacacattcacagcaaatttactattttttcttcttcccttccatttgttgagaagttttattaactacaaccacatttgatgttctgtatacatttattaacagGTTAGGAAGATAGGGAAAGTTGCACGAGCAATTGCTATAATGAGCCACCCAATTGCAAGCACAAATGACTCTCACTCAGTCCAGATTATTTTGCCACAGA

upper sequence: GRMZM2G435373_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os05g34540.1 (Oryza sativa), 3'ss of exon 9
gtgaatactctgtatgtccacattctaaagggcttggtcattgcgatgccaaatacttatattttgctagatggcaagctaatttactgaactttttttgttcccatcttgagaaggtatttctaattatatggccttctggtgcttttgctaaattttctctcattttttgccatcctattgtttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCAATCCCTAATACAAATGAGTCCCACTCGGTTCAAATTATTTTGCCTCAGA
|| |||  ||| |    |   ||||   |  |  | ||  ||   ||      | ||   || ||  || ||| ||   |   |  |   |  ||     ||    |          |  ||||     |       |       ||||  ||| |     |||||||  ||   | ||   |||| | |||||||||||||||| || | |||||  || || |||||||| ||||||||||| ||  | || |||||||| || ||||| || || ||||||||||| ||||
gttaattttcttt---cctgtattcagcacaggattgttcttttaatatgttcttctgggatatt--taaatgtcatattccatctcaagatattcacaattgaacttactgtgtttttcttctgcccttccatttgttgataagttttattaactgcaacctcatttgatgttctgcttacgtttattaacagGTTAGGAAGATAGGAAAAGTTGCACGCGCTATTGCTATTATGAGCCACCCGATTGCAAACACAAATGACTCGCACTCAGTCCAGATTATTTTGCCACAGA
















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|6031345|gb|AW076202.1|AW076202
EST:     CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAG                         GTTAGGAAGATTGGTAGAGTTGTTCGTGCAAT
genomic: CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAGgtgaatactc ... ttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAAT
EST: gi|24934285|gb|CA452503.1|CA452503
EST:     CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAG                         GTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
genomic: CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAGgtgaatactc ... ttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
EST: gi|67031426|gb|CO460175.1|CO460175
EST:     CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAG                         GTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
genomic: CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAGgtgaatactc ... ttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
EST: gi|33095264|gb|CF055258.1|CF055258
EST:     CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAG                         GTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
genomic: CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAGgtgaatactc ... ttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
EST: gi|32856054|gb|CD995735.1|CD995735
EST:     CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAG                         GTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
genomic: CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAGgtgaatactc ... ttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
EST: gi|47962286|gb|CN844995.1|CN844995
EST:     CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAG                         GTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
genomic: CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAGgtgaatactc ... ttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
EST: gi|33102234|gb|CF062194.1|CF062194
EST:     AAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAG                         GTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
genomic: AAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAGgtgaatactc ... ttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
EST: gi|211034436|gb|FL381555.1|FL381555
EST:     CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAG                         GTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
genomic: CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAGgtgaatactc ... ttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
EST: gi|211445979|gb|FL406296.1|FL406296
EST:     CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAG                         GTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
genomic: CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAGgtgaatactc ... ttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
EST: gi|211259815|gb|FL426651.1|FL426651
EST:     CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAG                         GTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
genomic: CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAGgtgaatactc ... ttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
EST: gi|32919393|gb|CF024205.1|CF024205
EST:     GCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAG                         GTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
genomic: GCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAGgtgaatactc ... ttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
EST: gi|211346475|gb|FL413228.1|FL413228
EST:     CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAG                         GTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA
genomic: CTGCAAAGTGCAAGAAGGTGGTCTGTGATCCTTCGTATTTACCAAACAAGgtgaatactc ... ttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtgcttttgctaaattttctctcattttttgccatcctattgtttctaaacagGTTAGGAAGATTGGTAGAGTTGTTCGTGCAATTGCTATCATGAGCCACCCAATCCCTAATACAAATGAGTCCCACTCGGTTCAAATTATTTTGCCTCAGA
         tgctaaa  putative branch site (score: 2)
                                         ttgtttct  putative PPT
      ttttgctaaatttt  TA-rich tract