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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattcctttttctttttattttcttccatgtttttttacatgtttctttttgtgtaaggtatggatatggatgtgcaatggtgcctgtttctgattttgattctcattatagGTCTTGCTGAAGGGCACATGCCGTGAAGAACTAAAGAAAATTAAACATGTTGTGCAATATGCAGTTTTTGCAGCCTATCACTTATCTCTTGAGACTTCAT

Basic information

species Glycine max
transcript GLYMA20G01680.1
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G01680.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os08g33200.1 (Oryza sativa), 3'ss of exon 4
gtattcctttttctttttattttcttccatgtttttttacatgtttctttttgtgtaaggtatggatatggatgtgcaatggtgcctgtttctgattttgattctcat-tatagGTCTTGCTGAAGGGCACATGCCGTGAAGAACTAAAGAAAATTAAACATGTTGTGCAATATGCAGTTTTTGCAGCCTATCACTTATCTCTTGAGACTTCAT
              || ||     |     |      |    | |||    |    |  | ||   | |  | |  | ||  |   | |     || |   |   | | |  ||||  | ||||  ||  |||| || || ||||||||||||||||| | ||||||||||  ||| || |||||||| |||||| | |||||||| || ||||
-------------cttgtacacattgtagggggagggtgtcagattcaccatcaccattgcattcttttcaaaggactata-tatttctaatcaatgtacctcaacttctgcagGTTCTACTGAGAGGATCATGTCGAGAGGAACTAAAGAAAATTAAGCGTGTTGTGCAACTTGCTGTGTTTGCAGCTTATCACCTCTCTCTTGAAACATCAT

upper sequence: GLYMA20G01680.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv01s0011g04790.t01 (Vitis vinifera), 3'ss of exon 4
gtattcctttttctttttattttcttccatgtttttttacatgtttctttttgtgtaaggtatggatatggatgtgcaatggtgcctgtttctgattttgattctcattatagGTCTTGCTGAAGGGCACATGCCGTGAAGAACTAAAGAAAATTAAACATGTTGTGCAATATGCAGTTTTTGCAGCCTATCACTTATCTCTTGAGACTTCAT
          | | ||   |  |||||    |||   |  |    |  | | ||| |    |||  | ||   ||   |||   |       | ||| ||  ||    | |||||||||||||||||  |||| ||||||||||| |||||| |||| |||||||| ||||||||||| |||||||||||||| ||||| ||||||||||| |
----------tacattaactagtcttctgcatttccatctac---tggtctagtgaagtagatgtttctgatggttatatgtctctaacaaatcattgtgcatccttatgtagGTCTTGCTGAAGGGTGCATGTCGTGAAGAACTGAAGAAAGTTAAGCATGTTGTTCAATATGCAGTGTTTGCAGCCTATCATTTATCCCTTGAGACTTCCT
















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|193311036|gb|FK274162.1|FK274162
EST:     CCAAAACATTAATGTTTTTTGAAGGTTGTCCACGGCGGTTGGGTTGCACG                         GTCTTGCTGAAGGGCACATGCCGTGAAGAACTAAAGAAAATTAAACATG
genomic: CCAAAACATTAATGTTTTTTGAAGGTTGTCCACGGCGGTTGGGTTGCACGgtattccttt ... ctcattatagGTCTTGCTGAAGGGCACATGCCGTGAAGAACTAAAGAAAATTAAACATG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtatggatatggatgtgcaatggtgcctgtttctgattttgattctcattatagGTCTTGCTGAAGGGCACATGCCGTGAAGAACTAAAGAAAATTAAACATGTTGTGCAATATGCAGTTTTTGCAGCCTATCACTTATCTCTTGAGACTTCAT
                                           ttctcatt  CT-rich tract
                                    attttgatt  TA-rich tract