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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACAGAGGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAGgtatatgagctacctttgagtttattaatcacttaagattgggtgtctattttctaaccatcccgctgccag

Basic information

species Zea mays
transcript GRMZM5G846198_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G846198_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os02g44510.1 (Oryza sativa), 5'ss of exon 11
TGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACAGAGGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAGgtatatgagctacctttgagtttattaatcacttaag--------attgggtgtctattttc---taaccatcccgctgccag------------------------------------------------------------------------------
||| ||||||||||| |||||||||||||||||  ||||  | ||||| || || ||||| || |||||||| ||||||||||||||||||||||||||||||  |||||| ||||||  |   || |  | ||||         ||| | |||||   ||    | |  ||  |      ||                                                                              
TGAACGTTTCCTCAAGATAATGATTTTGAGTGTATTAAAGCAAACACAAAGACCTGTGAAATTCTGGTTCATAAAGAATTATCTATCTCCACAGTTCAAGgtacgtgagctgcctttgcttgagttgagtatttaatgagaagatattagatgtctgcctttagttgagtatttcatgagaagatattagatgtcttcctttgagttgagtaatgagaagatattagatgcctgttgtctaaccaataatccaatggccag

upper sequence: GRMZM5G846198_T02 (Zea mays), 5'ss of exon 4
lower sequence: EFJ07070 (Selaginella moellendorffii), 5'ss of exon 28
TGAGCGTTTCCTCAAAATAATGATTTTGAGTGTTCTAAAAAAGACACAGAGGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAGgtatatgagctacctttgagtttattaatcacttaagattgggtgtctattttctaaccatcccgctgccag
 |||||||| || || || |||||  | || ||| | || || ||     |||||||||| |||||||| || ||||||||||| |||||||| || |||||    |  ||    |  |     |  | |    | ||||  |||                           
CGAGCGTTTTCTAAAGATTATGATGCTCAGCGTTTTGAAGAATACTAGACGGCCAGTGAAATTTTGGTTTATCAAGAATTATCTTTCTCCACAATTTAAGgttggcggact--tgtaaatcgcgtctagctgacaggatttcgtgcag------------------------
















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|32930138|gb|CF034950.1|CF034950
EST:     GGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAG                         GATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
genomic: GGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAGgtatatgagc ... ccgctgccagGATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
EST: gi|32850563|gb|CD990244.1|CD990244
EST:     GGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAG                         GATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
genomic: GGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAGgtatatgagc ... ccgctgccagGATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
EST: gi|32835266|gb|CD974944.1|CD974944
EST:     GGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAG                         GATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
genomic: GGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAGgtatatgagc ... ccgctgccagGATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
EST: gi|116823777|gb|EC867342.1|EC867342
EST:     TGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAG                         GATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
genomic: TGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAGgtatatgagc ... ccgctgccagGATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
EST: gi|32850558|gb|CD990239.1|CD990239
EST:     GGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAG                         GATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
genomic: GGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAGgtatatgagc ... ccgctgccagGATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
EST: gi|32932543|gb|CF037355.1|CF037355
EST:     GGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAG                         GATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
genomic: GGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAGgtatatgagc ... ccgctgccagGATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
EST: gi|32850631|gb|CD990312.1|CD990312
EST:     GGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAG                         GATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
genomic: GGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAGgtatatgagc ... ccgctgccagGATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
EST: gi|9743043|gb|BE519191.1|BE519191
EST:     GGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAG                         GATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC
genomic: GGCCAGTGAAGTTTTGGTTCATTAAGAATTATCTATCTCCACAGTTCAAGgtatatgagc ... ccgctgccagGATGTCATACCGCACATGGCTCGGGAATATGAATTCGAGTATGAGCTCGTC