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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggtattaactacttaaatttagcttctaagcataacaagatggagaagtggcaaaatgagcaatgtcatattcataggaataggagatgacaatggcatgtttatagagtaaattattctaaactaattgaacattctcttgttttgcaGGCTAGTGCACAGCCATTTTTGGTGCTTGGTCTGTTGGTTACTGCTCTAGCAACTAGCCACTAATCTTCATGTGCAAAAGTTGCCAAAGGGGCATTAAAT

Basic information

species Glycine max
transcript GLYMA18G43310.1
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G43310.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv08s0105g00590.t01 (Vitis vinifera), 3'ss of exon 14
ggtattaactacttaaatttagcttctaagcataacaagatggagaagtggcaaaatgagcaatgtcatattcataggaataggagatgacaatggcatgtttatagagtaaattattctaaactaattgaacattctctt-----gtt-ttgcaGGCTAGTGCACAGCCATTTTTGGTGCTTGGTCTGTTGGTTACTGCTCTAGCAACTAGCCACTAATCTTCATGTGCAAAAGT--TGCCAAAGGGGCATTAAAT
                                                       || | ||    |   ||| | |   |  ||  |||   || ||| |  ||  |   |  | || |    | | | ||  || ||||     |||   ||||||||| |||||||||||| | ||||||||||| ||||| || ||||| ||||||||||| | ||   | || ||||      |    |    | |   |||
-----------------------------------------------------tcataatcagaaccccgttcctggagtt--gatctgaatttgccat-tcaattaatccatctgttattggatgactaaagtttgtctttaatcgttaccgcagGCTAGCGCACAGCCATTTCTTGTGCTTGGTCTTTTGGTGACGGCTCTGGCAACTAGCCATTGATTCACGTG-GCAACTACCATATGGAGCAAGGAGAGAAT
















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|8826413|gb|BE210143.1|BE210143
EST:     GTTCAAGTATTTCCTCCAGGACCCTGTGAAATATGATGTTAAATATCA                         GGCTAGTGCACAGCCATTTTTGGTGCTTGGTCTGTTGGTTACTGCTCTAGC
genomic: GTTCAAGTATTTCCTCCAGGACCCTGTGAAATATGATGTTAAATATCAggtattaact ... ttgttttgcaGGCTAGTGCACAGCCATTTTTGGTGCTTGGTCTGTTGGTTACTGCTCTAGC
EST: gi|15203846|gb|BI426614.1|BI426614
EST:     GTTCAAGTATTTCCTCCAGGACCCTGTGAAATATGATGTTAAATATCA                         GGCTAGTGCACAGCCATTTTTGGTGCTTGGTCTGTTGGTTACTGCTCTAGC
genomic: GTTCAAGTATTTCCTCCAGGACCCTGTGAAATATGATGTTAAATATCAggtattaact ... ttgttttgcaGGCTAGTGCACAGCCATTTTTGGTGCTTGGTCTGTTGGTTACTGCTCTAGC
EST: gi|16276277|gb|BI941773.1|BI941773
EST:     GTTCAAGTATTTCCTCCAGGACCCTGTGAAATATGATGTTAAATATCA                         GGCTAGTGCACAGCCATTTTTGGTGCTTGGTCTG
genomic: GTTCAAGTATTTCCTCCAGGACCCTGTGAAATATGATGTTAAATATCAggtattaact ... ttgttttgcaGGCTAGTGCACAGCCATTTTTGGTGCTTGGTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcatgtttatagagtaaattattctaaactaattgaacattctcttgttttgcaGGCTAGTGCACAGCCATTTTTGGTGCTTGGTCTGTTGGTTACTGCTCTAGCAACTAGCCACTAATCTTCATGTGCAAAAGTTGCCAAAGGGGCATTAAAT
                           aactaat  putative branch site (score: 2)
                                      cattctcttgtttt  putative PPT
      tttatagagtaaatta  TA-rich tract