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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaactaagtcttctttacaatatttctagtaccactgcttttctcaatcaccaaagtagttttttttggcactattgacattgaattttatcacagGGAATTCTACAATCACAAGGAAGGCTTTTGCACAAAATGCGATTTATGCCATCCTCCCTGTCTTCAAAGTCGCATCGCTTATTAACTGCTCTGGTTGATT

Basic information

species Zea mays
transcript GRMZM2G048494_T03
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G048494_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os12g38970.1 (Oryza sativa), 3'ss of exon 6
gtaaactaagtcttctttacaat------atttctagtaccactgcttttc--tcaatcac---caaagtagttttttttggcactat-tgacattgaattttatcacagGGAATTCTACAATCACAAGGAAGGCTTTTGCACAAAATGCGATTTATGCCATCCTCCCTGTCTTCAAAGTCGCATCGCTTATTAACTGCTCTGGTTGATT
||||| ||  |||| | | ||||      || | |  ||||||  || |||  |||  | |   |    ||| | |   |  |   || | |  ||||||| ||   |||||| | || ||||||||||||||||| || |  |||||| |||| |||||||| ||| ||||||| || || ||||| |||||||||||||| |||||||
gtaaagtacttcttatctgcaattcaacaatgtttgctaccacctctgttcattcatgctcttactgcataggtgtcactaacctgatataattttgaattataatgcagGGAGTCCTTCAATCACAAGGAAGGCTCTTACGGAAAATGAGATTCATGCCATCTTCCTTGTCTTCGAAATCACATCGTTTATTAACTGCTCTTGTTGATT

upper sequence: GRMZM2G048494_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os07g01880.1 (Oryza sativa), 3'ss of exon 6
gtaaactaagtcttctttacaat------atttctagtaccactgcttttc--tcaatcac---caaagtagttttttttggcactat-tgacattgaattttatcacagGGAATTCTACAATCACAAGGAAGGCTTTTGCACAAAATGCGATTTATGCCATCCTCCCTGTCTTCAAAGTCGCATCGCTTATTAACTGCTCTGGTTGATT
||||| ||  |||| | | ||||      || |    ||||||  || |||  |||  | |   |    ||| | |   |  |   || | |  ||||||| ||   |||||| | || ||||||||||||||||| || |  |||||| |||| |||||||| ||| ||||||| || || ||||| |||||||||||||| |||||||
gtaaagtacttcttatctgcaattcaacaatgttcgctaccacctctgttcattcatgctcttaccgcataggtctcactaacctgatataattttgaattgtaatgcagGGAGTCCTTCAATCACAAGGAAGGCTCTTACGGAAAATGAGATTCATGCCATCTTCCTTGTCTTCGAAATCACATCGTTTATTAACTGCTCTTGTTGATT
















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|149041295|gb|EE046931.2|EE046931
EST:     TACATGAGGCGCATCATGACCAGTCCCATCTGTTTTTGAGGCATGGGAAG                         GGAATTCTACAATCACAAGGAAGGCTTTTGCACAAAATGCGATTTATGCCA
genomic: TACATGAGGCGCATCATGACCAGTCCCATCTGTTTTTGAGGCATGGGAAGgtaaactaag ... tttatcacagGGAATTCTACAATCACAAGGAAGGCTTTTGCACAAAATGCGATTTATGCCA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcaatcaccaaagtagttttttttggcactattgacattgaattttatcacagGGAATTCTACAATCACAAGGAAGGCTTTTGCACAAAATGCGATTTATGCCATCCTCCCTGTCTTCAAAGTCGCATCGCTTATTAACTGCTCTGGTTGATT
                               tattgac  putative branch site (score: 2)
                                            ttttatc  putative PPT
           aaagtagtttttttt  TA-rich tract