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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtggtagtggtgctaatgcttggctattttaattttttgtgaaaattctcctggtaatagaaagacttagtgtgaaaaagcttttgattcccagGAGCTGCGGCGTATAAAGCCAGTTCCCAAATTGGCTTGCCACAGTGTGGCTTCTTGGTGTCATCCTCGAGCTCCAAACCTTGATATTCTAACTTGCGTCA

Basic information

species Glycine max
transcript GLYMA03G38530.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G38530.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g46510.2 (Oryza sativa), 3'ss of exon 8
gtgtggtagtggtgctaatgcttggctattttaattttttgtgaaaattctcctggtaatagaaagacttagtgtgaaaaagcttttgattcccagGAGCTGCGGCGTATAAAGCCAGTTCCCAAATTGGCTTGCCACAGTGTGGCTTCTTGGTGTCATCCTCGAGCTCCAAACCTTGATATTCTAACTTGCGTCA
     |||      ||| | |   |  ||| || ||||||        | |  |  | |  |||   |||| ||    |     | |  |   |||||  |  | || || || ||||| || ||| | |||||||| ||||| || || |||||||||||||| || ||||||||||||||||| ||||| ||||
-----gtatactcactatttccgtgtgattgtattttttt--------tttgttatttaaggaagagctta-tgcagtagcatatcttttgtgcagGAAATAAGACGCATTAAACCAGTACCTAAACTTGCTTGCCATAGTGTTGCATCGTGGTGTCATCCTCGTGCACCAAACCTTGATATTCTGACTTGTGTCA

upper sequence: GLYMA03G38530.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G000177_T01 (Zea mays), 3'ss of exon 8
gtgtggtagtggtgctaatgcttggctattttaattttttgtgaaaattctcctggtaatagaaagacttagtgtgaaaaagcttttgattcccagGAGCTGCGGCGTATAAAGCCAGTTCCCAAATTGGCTTGCCACAGTGTGGCTTCTTGGTGTCATCCTCGAGCTCCAAACCTTGATATTCTAACTTGCGTCA
     ||| |  |   |||  |||  |    | || || | |   | |||          || |   ||||  || | | |   |||| | | |||||  |  |||| || |||||||| || ||| | ||||| || ||||| || || ||||||||||| || || ||||||||||||||||||||||| ||||
-----gtacttatataaatatttgcatgaagttatattatttattatttca---------agtagagcttaaagtaacaca---tttgctgctcagGAAATAAGGCGCATTAAGCCAGTGCCTAAACTTGCTTGTCATAGTGTTGCATCGTGGTGTCATCCCCGTGCACCAAACCTTGATATTCTAACTTGTGTCA

upper sequence: GLYMA03G38530.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G24710.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgtggtagtggtgctaatgcttggctattttaattttttgtgaaaattctcctggtaatagaaagacttagtgtgaaaaagcttttgattcccagGAGCTGCGGCGTATAAAGCCAGTTCCCAAATTGGCTTGCCACAGTGTGGCTTCTTGGTGTCATCCTCGAGCTCCAAACCTTGATATTCTAACTTGCGTCA
  ||  | |||   || |||  ||| | ||| |  ||||   ||    ||   |  ||| |   | |  ||           |||||  |   |||||||| ||  | || || || || || ||| | |||||||||||||| || ||||||||||| |||||||| ||||||||||||||| | |||||||| |
--gtaatggtgtatctcatgtatggatttttcatattttcccgat--ctcatttattaacatgcatatcta-----------cttttattctacagGAGCTACGTAGAATTAAACCTGTCCCGAAACTAGCTTGCCACAGTGTTGCATCTTGGTGTCACCCTCGAGCGCCAAACCTTGATATTTTGACTTGCGTTA

upper sequence: GLYMA03G38530.1 (Glycine max), 3'ss of exon 8
lower sequence: PP1S28_115V6.1 (Physcomitrella patens), 3'ss of exon 9
-------gtgtggtagtggtgctaatgcttggctattttaattttttgtgaaaattctcctggtaatagaaagacttagtgtgaaaaagcttttgattcccagGAGCTGCGGCGTATAAAGCCAGTTCCCAAATTGGCTTGCCACAGTGTGGCTTCTTGGTGTCATCCTCGAGCTCCAAACCTTGATATTCTAACTTGCGTCA
        | |   ||| |  |  |    |   ||||||  ||||||||| |    ||   ||||     || ||| |     |        ||  |   |||||  || ||||||| ||||||||| | ||| || |||| || ||||| || ||||||||||||||||| | ||||||  | ||| ||||   ||| || |
ttcgttgatcttagagttgaccggacttatttttattttcgttttttgtggaggaactg--ggtatcgacaatactca-cacaattctcggatttttgtgcagGAATTGAGGCGTATTAAGCCAGTTTCGAAAATGTCTTGTCAAAGTGTAGCATCTTGGTGTCATCCTCGCGTTCCAAATTTAGATCTTCTTGTTTGTGTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaaaattctcctggtaatagaaagacttagtgtgaaaaagcttttgattcccagGAGCTGCGGCGTATAAAGCCAGTTCCCAAATTGGCTTGCCACAGTGTGGCTTCTTGGTGTCATCCTCGAGCTCCAAACCTTGATATTCTAACTTGCGTCA
                                          ttttgat  putative branch site (score: 4)
                                         ctttt  CT-rich tract
               taatagaaa  TA-rich tract