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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCAGCAACTTTTCTTGCATTTCACCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCATCCAAATCTATAATGTCCGAATTGATGAGgtattcacagtggctttgtttttctttccattgaacaggacacagttagtatatggcttatttattctttgtacag

Basic information

species Zea mays
transcript GRMZM2G550865_T02
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G550865_T02 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os03g14980.1 (Oryza sativa), 5'ss of exon 22
GGCAGCAACTTTTCTTGCATTTCACCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCATCCAAATCTATAATGTCCGAATTGATGAGgtattcaca------gtggctttgtttt------tctttccattgaacaggacacagtt-agtatatggcttattt-attctttgtacag
||| ||||| |||||||| || || || |||||||||||||| || ||||||||||||||||||||||||||||||||||| ||||| |||||||||||||||||  ||       |||| ||| | |      |  ||  |   ||  | |||   || | |  ||   || ||| |||||||| ||||
GGCGGCAACGTTTCTTGCTTTCCATCCTCAAGATAACAACATTATAGCAATTGGAATGGATGACTCAACCATCCAAATCTACAATGTTCGAATTGATGAGgtattagcacatctaatggcattgctctgcgttattcttataaaaaatggaacaagattcaatcaattttttttttgattctttgcacag

upper sequence: GRMZM2G550865_T02 (Zea mays), 5'ss of exon 8
lower sequence: PP1S99_260V6.1 (Physcomitrella patens), 5'ss of exon 21
GGCAGCAACTTTTCTTGCATTTCACCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCATCCAAATCTATAATGTCCGAATTGATGAGgtat-tcacagtggctttgttt------ttctttccattgaacaggacacagttagtatatggcttatttat---tctttgtacag--------------------------------------------
 ||||| ||||||||||||||||| || ||||| ||||| || ||||| || |||||||| || || || || || || |||||||| ||  | |||||||||| | |    | | |||         ||       |   |   | |||| ||    |   || ||| | |   | ||  || |                                             
AGCAGCTACTTTTCTTGCATTTCATCCACAAGACAACAATATCATTGCTATCGGAATGGAAGATTCGACAATTCAGATTTATAATGTTCGTGTGGATGAGgtatgttatcaagtccttgccagataagttgcgcttttgtgatttgtcacacttgtgttgatgcatatgtctcggttttaatataagactgtcgttgatacgcttaataagatttctctgctgttcacag

upper sequence: GRMZM2G550865_T02 (Zea mays), 5'ss of exon 8
lower sequence: PP1S316_34V6.1 (Physcomitrella patens), 5'ss of exon 21
GGCAGCAACTTTTCTTGCATTTCACCCCCAAGATAACAACATAATTGCAATTGGAATGGATGACTCAACCATCCAAATCTATAATGTCCGAATTGATGAGgtattcacagtggctttgtttttctt----tccattgaacaggacacagttagtatatggcttatt-tattctttgtacag-------------------------------------
 ||||| ||||||||||| || || |||||||| |||||||| ||||| || |||||||| || ||||| || || || |||||||| ||  | |||||||||||      |||  |  |||  ||    ||    | ||         || ||||  | |   || ||||||   | | |                                     
AGCAGCTACTTTTCTTGCGTTCCATCCCCAAGACAACAACATCATTGCCATAGGAATGGAGGATTCAACAATACAGATTTATAATGTTCGTGTAGATGAGgtattttaccaggccgttctttctttgtgatctcccgtacctatgttgatttgtattcgtcagtttgtattctagatcccgaataatgtgcctaattagagctttctgctgttggcag

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|74236788|gb|DT644702.1|DT644702
EST:     TTGGAATGGATGACTCAACCATCCAAATCTATAATGTCCGAATTGATGAG                         GTCAAAAGCAAGCTCAGGGGTCACTCTAAGAGAATCACGGGTCTTGCCTTT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTATAATGTCCGAATTGATGAGgtattcacag ... ctttgtacagGTCAAAAGCAAGCTCAGGGGTCACTCTAAGAGAATCACGGGTCTTGCCTTT
EST: gi|32858467|gb|CD998148.1|CD998148
EST:     TTGGAATGGATGACTCAACCATCCAAATCTATAATGTCCGAATTGATGAG                         GTCAAAAGCAAGCTCAGGGGTCACTCT
genomic: TTGGAATGGATGACTCAACCATCCAAATCTATAATGTCCGAATTGATGAGgtattcacag ... ctttgtacagGTCAAAAGCAAGCTCAGGGGTCACTCT