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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttccttgacaaattttcaagattctggtgttagaatttgtataaagtattcagctttccataacagccaaagtgatatcattggattatacatgcagGATGTGGGCATGAGCTTTGTGTAAGATGTGCACTCTATCTTTGCTCAACAAACAATGTTTCTTCTGAAATGGTTGGCCCTCCTGGCTCTATCCCTTGCCC

Basic information

species Glycine max
transcript GLYMA20G29590.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G29590.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 10
----tttttccttgacaaattttcaagat-tctggtgttagaatttgtataaagtattcagctttccataacagccaaagtgatatca-ttggattatacatgcagGATGTGGGCATGAGCTTTGTGTAAGATGTGCACTCTATCTTTGCTCAACAAACAATGTTTCTTCTGAAATGGTTGGCCCTCCTGGCTCTATCCCTTGCCC
       |       ||| | |||||    ||| |   |  |||   | |   ||||| |   |  || |  |   | ||| |||| | ||   |||||| | |||| ||||| ||||||||||||||||||||||||||||||||||||||||||| |||  |  | || |||||||| ||||| ||||| || || || |||||
tgggcactcttaaagcaattgttcaaagcatctagcaatgcaatcattttc--gtattta--ctatcacactaa--atagttatataaatttatttatactttcagGCTGTGGTCATGAGCTTTGTGTAAGATGTGCACTCTATCTTTGCTCAACAAGCAACATCCCATCCGAAATGGTGGGCCCACCTGGGTCCATTCCATGCCC
















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|21994518|gb|BQ786046.1|BQ786046
EST:     TGACTTTTGTGCTGTATGCCTGGAGAGGCCATGTTCAGTGGCTGCAGAAG                         GATGTGGGCATGAGCTTTGTGTAAGATGTGCACTCTATCTTTGCTCAACAA
genomic: TGACTTTTGTGCTGTATGCCTGGAGAGGCCATGTTCAGTGGCTGCAGAAGgtattatctt ... atacatgcagGATGTGGGCATGAGCTTTGTGTAAGATGTGCACTCTATCTTTGCTCAACAA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagtattcagctttccataacagccaaagtgatatcattggattatacatgcagGATGTGGGCATGAGCTTTGTGTAAGATGTGCACTCTATCTTTGCTCAACAAACAATGTTTCTTCTGAAATGGTTGGCCCTCCTGGCTCTATCCCTTGCCC
               ccataac  putative branch site (score: 3)
                                          attatacat  TA-rich tract