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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CACGCACGGTGTGCCTGCTCCAAGGAACAGCCACCCCCAATCGTCTGGTGCCGGTGATGAGTTCTTGGTTGTCCACAATGGCATTATCACCAACTATGAGgtctgcttactctgctattgtgatattgtataatataaaatagagttcttgcatgttcttcgtttcatatggtgacatacttgttactgtgtgtgacatt...

Basic information

species Zea mays
transcript GRMZM2G005849_T01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G005849_T03 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os12g03720.2 (Oryza sativa), 5'ss of exon 2
CACGCACGGTGTGCCTGCTCCAAGGAACAGCCACCCCCAATCGTCTGGTGCCGGTGATGAGTTCTTGGTTGTCCACAATGGCATTATCACCAACTATGAGgtc--tgcttactctgctattgtgatattgtataatataaaatagagttcttgcatgttcttcgtttcat-atggtgacatacttgttactgtgtgtgacatt
|||||| ||||||||||| ||||||||||||||||||||||| ||||||||||| |||||||||||||| |||||||||||||| ||||| ||||| |||||   || ||||  |||| || |||  || |   || |  | |||| |||||| ||  | ||  | |||| ||  | |||                       
CACGCATGGTGTGCCTGCCCCAAGGAACAGCCACCCCCAATCTTCTGGTGCCGGCGATGAGTTCTTGGTCGTCCACAATGGCATCATCACAAACTACGAGgttcttgtttaccttgctcttctgaagttctgatat-tgtactagaattcttgtatagtatttctctcatcatctttacag----------------------

upper sequence: GRMZM2G005849_T03 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os12g03720.1 (Oryza sativa), 5'ss of exon 2
CACGCACGGTGTGCCTGCTCCAAGGAACAGCCACCCCCAATCGTCTGGTGCCGGTGATGAGTTCTTGGTTGTCCACAATGGCATTATCACCAACTATGAGgtc--tgcttactctgctattgtgatattgtataatataaaatagagttcttgcatgttcttcgtttcat-atggtgacatacttgttactgtgtgtgacatt
|||||| ||||||||||| ||||||||||||||||||||||| ||||||||||| |||||||||||||| |||||||||||||| ||||| ||||| |||||   || ||||  |||| || |||  || |   || |  | |||| |||||| ||  | ||  | |||| ||  | |||  || |  | |     || ||||
CACGCATGGTGTGCCTGCCCCAAGGAACAGCCACCCCCAATCTTCTGGTGCCGGCGATGAGTTCTTGGTCGTCCACAATGGCATCATCACAAACTACGAGgttcttgtttaccttgctcttctgaagttctgatat-tgtactagaattcttgtatagtatttctctcatcatctttaca-gctggggaatccacatg-catt

upper sequence: GRMZM2G005849_T03 (Zea mays), 5'ss of exon 1
lower sequence: LOC_Os11g03900.1 (Oryza sativa), 5'ss of exon 2
CACGCACGGTGTGCCTGCTCCAAGGAACAGCCACCCCCAATCGTCTGGTGCCGGTGATGAGTTCTTGGTTGTCCACAATGGCATTATCACCAACTATGAGgtc--tgcttactctgctattgtgatattgtataatataaaatagagttcttgcatgttcttcgtttcatatggtgacatacttgttactgtgtgtgacatt----
|||||||||||||||||| ||||||||||||||||||||||| |||||||| || ||||| |||||||| |||||||||||||| ||||| ||| | |||||   || ||||| |||| || |||  || |   || |  | |||| |||||| ||  | || || ||  ||     |||  ||    ||| |     ||      
CACGCACGGTGTGCCTGCCCCAAGGAACAGCCACCCCCAATCTTCTGGTGCTGGCGATGAATTCTTGGTCGTCCACAATGGCATCATCACAAACAACGAGgttcttgtttactttgctcttctgaagttctgatat-tgtactagaattcttgtatagtatttgtctctcat-----catctttacagctggggaatgcacatgca

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|211507108|gb|FK960922.1|FK960922
EST:     CCGGTGATGAGTTCTTGGTTGTCCACAATGGCATTATCACCAACTATGAG                         GTCTTGAAAGAGACACTAACTAGGCACGGCTTCACCTTTGAGTCTGATACA
genomic: CCGGTGATGAGTTCTTGGTTGTCCACAATGGCATTATCACCAACTATGAGgtctgcttac ... ttctgttcagGTCTTGAAAGAGACACTAACTAGGCACGGCTTCACCTTTGAGTCTGATACA
EST: gi|149005284|gb|EE039833.2|EE039833
EST:     CCGGTGATGAGTTCTTGGTTGTTCACAATGGCATTATCACCAACTATGAG                         GTCTTGAAAGAGACACTAACTAGG
genomic: CCGGTGATGAGTTCTTGGTTGTCCACAATGGCATTATCACCAACTATGAGgtctgcttac ... ttctgttcagGTCTTGAAAGAGACACTAACTAGG
EST: gi|89758439|gb|DY687617.1|DY687617
EST:     CCGGTGATGAGTTCTTGGTTGTCCACAATGGCATTATCACCAACTATGAG                         GTCTTGAAAGAGACACTAACTAGGCACGGCTTCACCTTTGAGTCTGATACA
genomic: CCGGTGATGAGTTCTTGGTTGTCCACAATGGCATTATCACCAACTATGAGgtctgcttac ... ttctgttcagGTCTTGAAAGAGACACTAACTAGGCACGGCTTCACCTTTGAGTCTGATACA
EST: gi|149014772|gb|EE044464.2|EE044464
EST:     CCGGTGATGAGTTCTTGGTTGTCCACAATGGCATTATCACCAACTATGAG                         GTCTTGAAAGAGACACTAACTAGGCACGGCTTCACCTTTGAGTCTGATACA
genomic: CCGGTGATGAGTTCTTGGTTGTCCACAATGGCATTATCACCAACTATGAGgtctgcttac ... ttctgttcagGTCTTGAAAGAGACACTAACTAGGCACGGCTTCACCTTTGAGTCTGATACA
EST: gi|149081060|gb|EE170160.2|EE170160
EST:     CCGGTGATGAGTTCTTGGTTGTCCACAATGGCATTATCACCAACTATGAG                         GTCTTGAAAGAGACACTAACTAGGCACGGCTTCACCTTTGAGTCTGATACA
genomic: CCGGTGATGAGTTCTTGGTTGTCCACAATGGCATTATCACCAACTATGAGgtctgcttac ... ttctgttcagGTCTTGAAAGAGACACTAACTAGGCACGGCTTCACCTTTGAGTCTGATACA