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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttattgtcggtgggagcggcatcatgttcaatgcaccctctacaccttaacatgattctttcatgctaaacacactctttttatgatctttgtgattcagGCTTATCTTCCATGTCATACACCTGAGCCACTGCGCAAGTTCAGGGAACAAGAACTAAAAACTCTCTGCGGGAAAGGGTTCGGGAAGCTTAATGAGTGGG

Basic information

species Glycine max
transcript GLYMA20G28290.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G28290.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0020g03170.t01 (Vitis vinifera), 3'ss of exon 2
ttattgtcggtgggagcggcatcatgttcaatgcaccctctacacc-ttaacatgattctttcatgctaaacacactctttttatgatctttgtgatt------cagGCTTATCTTCCATGTCATACACCTGAGCCACTGCGCAAGTTCAGGGAACAAGAACTAAAAACTCTCTGCGGGAAAGGGTTCGGGAAGCTTAATGAGTGGG
           |  |  || | | |    || |     | |||||  | |||||  |          |||| | |  ||  | |  |  ||   ||||      ||||| |||||||||||||||||||| |||||  | ||| ||| ||||||| |||||||    |  ||  | || || ||    ||  |||  ||    ||||
-------aaaggaaaagggaaacttaacgaaagtgaattttacacaatcaacattgtgtgaattgagtaaatatatgctaataagcaagttcaagatttgtgtacagGCCTATCTTCCATGTCATACACCAGAGCCTTTACGCCAGTACAGGGAAGAAGAACTGGTGAAACTTCGTGGAAATGGACAAGGTGAGCGCAAAACATGGG
















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|192323667|gb|FK015973.1|FK015973
EST:     TCTACCCTGCTCATCGTTACGCCCATGATCGTGTCTTCTTCGCCAACAAG                         GCTTATCTTCCATGTCATACACCTGAGCCACTGCGCAAGTTCAGGGAACAA
genomic: TCTACCCTGCTCATCGTTACGCCCATGATCGTGTCTTCTTCGCCAACAAGgtactaacta ... tgtgattcagGCTTATCTTCCATGTCATACACCTGAGCCACTGCGCAAGTTCAGGGAACAA
EST: gi|213603663|gb|DB962753.1|DB962753
EST:     TCTACCCTGCTCATCGTTACGCCCATGATCGTGTCTTCTTTGCCAACA-G                         GCTTATCTTCCATGTCATACACCTGA
genomic: TCTACCCTGCTCATCGTTACGCCCATGATCGTGTCTTCTTCGCCAACAAGgtactaacta ... tgtgattcagGCTTATCTTCCATGTCATACACCTGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttaacatgattctttcatgctaaacacactctttttatgatctttgtgattcagGCTTATCTTCCATGTCATACACCTGAGCCACTGCGCAAGTTCAGGGAACAAGAACTAAAAACTCTCTGCGGGAAAGGGTTCGGGAAGCTTAATGAGTGGG
                  tgctaaa  putative branch site (score: 2)
                                         tctttgt  putative PPT
                                tttttatgatcttt  TA-rich tract