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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtatgggcatttattatattccatttatgtgtcccttttctttttctgtcaaaattatctctatgttattagttatatttataattttatatgctttttaaagATTGAGAGCTTGTATCCCAAAGAAATGGGGCCTGGCGTAATGACTGTTGAAGACTTCTTGAACCGTGGACTCTTGTTGCTTGATAAAGATATTCAAGATA

Basic information

species Glycine max
transcript GLYMA20G11950.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G11950.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv06s0009g01460.t01 (Vitis vinifera), 3'ss of exon 8
----------------------------------------------------------gtttgtatgggcatttattatattccatttatgtgtccctt-------ttctttttctgtcaaaatt---atctctatgttattag--ttatatttataatt-ttatatgctttttaaagATTGAGAGCTTGTATCCCAAAGAAATGGGGCCTGGCGTAATGACTGTTGAAGACTTCTTGAACCGTGGACTCTTGTTGCTTGATAAAGATATTCAAGATA
                                                            |||  |     |   || ||||| | || | |  |   |       |   |   |  ||||  ||   ||     | | |||    || | || |||||  |||| |   || |  ||||||| |||||||| ||  |||||||||| |||  | | ||| || | |||||||| |||| | |||| ||||||||||||||||| ||||| ||||| |
gtcagtgttgatatctccttttctctattttattttttaaataaatattagaatacaatcttgattaatggtcagttgtattctaattttttaacaagtaaatgaatatataaaccatcaagcttttaattcaagtttcattgaacttttcttcataatcgttatttctgttctgtagATTGAAAGCTTGTACCCTGAAGAAATGGGACCTAACATGATGTCTTTGGAAGACTTTTTGAGCAGTGGGCTCTTGTTGCTTGATAATGATATCCAAGAAA
















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|9899975|gb|BE608943.1|BE608943
EST:     TAATACTTGCTCGAATACTTGGCCATCAAATTAATCTGGATAGCATTCAG                         ATTGAGAGCTTGTATCCCAAAGAAATGGGGCCTGGCGTAATGACTGTTGAA
genomic: TAATACTTGCTCGAATACTTGGCCATCAAATTAATCTGGATAGCATTCAGgtttgtatgg ... ctttttaaagATTGAGAGCTTGTATCCCAAAGAAATGGGGCCTGGCGTAATGACTGTTGAA
EST: gi|192305169|gb|FG997491.1|FG997491
EST:     TAATACTTGCTCGAATACTTGGCCATCAAATTAATCTGGATAGCATTCAG                         ATTGAGAGCTTGTATCCCAAAGAAATGGGGCCTGGCGTAATGACTGTTGAA
genomic: TAATACTTGCTCGAATACTTGGCCATCAAATTAATCTGGATAGCATTCAGgtttgtatgg ... ctttttaaagATTGAGAGCTTGTATCCCAAAGAAATGGGGCCTGGCGTAATGACTGTTGAA
EST: gi|298178813|gb|HO024548.1|HO024548
EST:     TAATACTTGCTCGAATACTTGGCCATCAAATTAATCTGGATAGCATTCAG                         ATTGAGAGCTTGTATCCCAAAGAAATGGGGCCTGGCGTAATGACTGTTGAA
genomic: TAATACTTGCTCGAATACTTGGCCATCAAATTAATCTGGATAGCATTCAGgtttgtatgg ... ctttttaaagATTGAGAGCTTGTATCCCAAAGAAATGGGGCCTGGCGTAATGACTGTTGAA
EST: gi|18040511|gb|BM308805.1|BM308805
EST:     TAATACTTGCTCGAATACTTGGCCATCAAATTAATCTGGATAGCATTCAG                         ATTGAGAGCTTGTATCCCAAAGAAATGGGGCCTGGCGTAATGACTGTTGAA
genomic: TAATACTTGCTCGAATACTTGGCCATCAAATTAATCTGGATAGCATTCAGgtttgtatgg ... ctttttaaagATTGAGAGCTTGTATCCCAAAGAAATGGGGCCTGGCGTAATGACTGTTGAA
EST: gi|22930193|gb|BU547332.1|BU547332
EST:     TAATACTTGCTCGAATACTTGGCCATCAAATTAATCTGGATAGCATTCAG                         ATTGAGAGCTTGTATCCCAAAGAAATGGGGCCTGGCGTAATGACTGTTGAA
genomic: TAATACTTGCTCGAATACTTGGCCATCAAATTAATCTGGATAGCATTCAGgtttgtatgg ... ctttttaaagATTGAGAGCTTGTATCCCAAAGAAATGGGGCCTGGCGTAATGACTGTTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaaaattatctctatgttattagttatatttataattttatatgctttttaaagATTGAGAGCTTGTATCCCAAAGAAATGGGGCCTGGCGTAATGACTGTTGAAGACTTCTTGAACCGTGGACTCTTGTTGCTTGATAAAGATATTCAAGATA
                                           tgcttttt  CT-rich tract
     attatctctatgttat  TA-rich tract