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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtgtccctgaatatagtttttgactccccacatgccatatgttacatcgtgcatatttatttcctagaggaatgttttatgatgatggtttgtattctgctattattttcagGATGAACTTCCTGAGTAATATTCTTAGGGAAGAAGGGGGTTTTGATTACAAGAAGGCAATTGTAGATTCAATTGTGATTCTCATTAGAGATATCCCTGAT

Basic information

species Glycine max
transcript GLYMA06G01520.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os07g10150.1 (Oryza sativa), 3'ss of exon 9
gtatgtgtccctgaatatagtttttgactccccacatgccatatgttacatcgtgcatatttatttcc-tagaggaatgttttatgatgatggt-ttgtattctgctattattttcagGATGAACTTCCTGAGTAATATTCTTAGGGAAGAAGGGGGTTTTGATTACAAGAAGGCAATTGTAGATTCAATTGTGATTCTCATTAGAGATATCCCTGAT
                             |     ||  | ||| ||         | |||| |     |  || | |   || | || |     ||| | | || | |  ||| ||||||||||||  |||||||||| ||  ||||||| || || ||||| ||||||||||| ||||| ||||||||| | || |||||||||||||| ||||||
--------------------------gtacgtagaatagcgtatattcttatacagaaatttttaaagatccagaactagcttgtcatcagaacattgaactttgttgt-gtttgcagGATGAACTTTTTGAGTAATATCCTACGGGAAGAGGGTGGCTTTGAGTACAAGAAGGCTATTGTTGATTCAATTATCATACTCATTAGAGATATTCCTGAT

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G178618_T01 (Zea mays), 3'ss of exon 9
gtatgtgtccctgaatatagtttttgactccccacatgccatatgttacatcgtgcatatttatttcctagaggaatgttttatgatgatggtttgtattctgctattattttcagGATGAACTTCCTGAGTAATATTCTTAGGGAAGAAGGGGGTTTTGATTACAAGAAGGCAATTGTAGATTCAATTGTGATTCTCATTAGAGATATCCCTGAT
|||||| |     |   |   |||  |||   |   |   | ||  || |      |  ||| |   ||| | | ||            |  |||  |||    |||   || ||||||||||||| |||||||||||||  ||||||| || || || || |||||||| || || || ||||||||| | || |||||||||||||| ||||||
gtatgtatatagaagcgtg--tttgcactattcttgttaaacatcgtaaact----acctttttcatctataagcat------------taattttcatt----tatctgttccagGATGAACTTCTTGAGTAATATTCTACGGGAAGAGGGAGGATTCGAGTACAAGAAAGCCATAGTTGATTCAATTATTATACTCATTAGAGATATTCCTGAT

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G036034_T01 (Zea mays), 3'ss of exon 9
gtatgtgtccctgaatatagtttttgactccccacatgccatatgttacatcgtgcatatttatttcctagaggaatgttttatgatgatggtttgtattctgctattattttcagGATGAACTTCCTGAGTAATATTCTTAGGGAAGAAGGGGGTTTTGATTACAAGAAGGCAATTGTAGATTCAATTGTGATTCTCATTAGAGATATCCCTGAT
|||||| |     |  ||   || |  | |    | ||  | || | | |   | | | |||  |  ||| | | ||            |  |||  |||    |||   ||| |||||||||||| |||||||||||||  ||||||| || || || || || ||||| || || || ||||||||| | || |||||||||||||| ||||||
gtatgtatatagaagcatgtcttcttgcgctagtcttgttaaatatcataaactacctttttcat--ctataagcat------------taatttccatt----tatctgttttagGATGAACTTCTTGAGTAATATTCTACGGGAAGAGGGTGGATTCGAGTATAAGAAAGCCATAGTTGATTCAATTATTATACTCATTAGAGATATTCCTGAT

upper sequence: GLYMA06G01520.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv03s0063g02450.t01 (Vitis vinifera), 3'ss of exon 9
-------gtatgtgtccctgaatatagtttttgactc-cccacatgccatatgttacatcgtgcatatttatttcctagaggaatgttttatgatgatggtttgtat-------tctgctattattttcagGATGAACTTCCTGAGTAATATTCTTAGGGAAGAAGGGGGTTTTGATTACAAGAAGGCAATTGTAGATTCAATTGTGATTCTCATTAGAGATATCCCTGAT
        |||       |  || |  |  || |  |       |   || | |||  || |   ||  |      |  |  |   ||   | |||     | | ||       | | |  |  ||||||||||||||||| | || || ||||||||||||||||| || ||||| ||||| ||||| ||||| |||||||| ||||| ||||| |||||||| ||||||
gtaagtgatatcctgtttttgatgtcatcattaaaacatttgggttttat-ttttatgtcttttttaaatgaacagtgtaaaatgtttccgtcatgtgaaatagaataaccctttttcccttgcttttcagGATGAACTTCTTAAGCAACATTCTTAGGGAAGAAGGTGGATTTGAGTACAAAAAGGCGATTGTTGATTCAATCGTGATCCTCATAAGAGATATTCCTGAT

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|151397771|gb|EV267644.1|EV267644
EST:     GAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCT                         GATGAACTTCCTGAGTAATATTCTTAGGGAAGAAGGGGGTTTTGATTACAA
genomic: GAAGCAATAAGATCATTGTGCCTGAAGTTTCCTTTAAAATATCGATCTCTgtatgtgtcc ... ttattttcagGATGAACTTCCTGAGTAATATTCTTAGGGAAGAAGGGGGTTTTGATTACAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttcctagaggaatgttttatgatgatggtttgtattctgctattattttcagGATGAACTTCCTGAGTAATATTCTTAGGGAAGAAGGGGGTTTTGATTACAAGAAGGCAATTGTAGATTCAATTGTGATTCTCATTAGAGATATCCCTGAT
                                             ttattttc  CT-rich tract
                                           tattattttca  TA-rich tract