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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttagtccaatgattaatgattcttttattctatcctggttcttatgatgagacattctgacttgccatctgtttggtagCATGCATATGATCCCCAGGCTGGTTATGATATTCCGTACTTCAGACCCACAATGGATGAAACAGTACGAGGGCAGGGTTTACCATCTCCCCAGGAG

Basic information

species Vitis vinifera
transcript Vv09s0002g01530.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g01530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G00810.2 (Glycine max), 3'ss of exon 8
---------------gtgagtttagtccaatgattaatgattcttttattctatcctggttcttatgatgagacattctgac-ttgccatctgtttggtagCATGCATATGATCCCCAGGCTGGTTATGATATTCCGTACTTCAGACCCACAATGGATGAAACAGTACGAGGGCAGGGTTTACCATCTCCCCAGGAG
               || ||| |      ||| |  |  | |    |||    |  | ||| || ||    | | |||   | |  |  |    ||   | || || || ||| | |  ||||||||||| ||||| ||||||||||||||||| ||||||||||||||||||||||||||  ||||||| ||||||
catctttgttgaagtgttagtgttacttgatgttataaaaataaaatat---gtatttgtt-ttgtgccttgtctttccatcctcacttttaaattccaaacagGCTTACGATTCTCCAGCTGGTTATGACATTCCTTACTTCAGACCCACAATTGATGAAACAGTACGAGGGCAGGGTTTGTCATCTCCTCAGGAG

upper sequence: Vv09s0002g01530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G04100.1 (Glycine max), 3'ss of exon 7
--------------gtgagtttagtccaatgattaatgattcttttat-tctatcctggttcttatgatgagacattctgacttgccatctgtttggtagCATGCATATGATCCCCAGGCTGGTTATGATATTCCGTACTTCAGACCCACAATGGATGAAACAGTACGAGGGCAGGGTTTACCATCTCCCCAGGAG
              || ||| |      ||| |  || | |    ||| | | |  ||  ||||||  |    |  ||   ||  |  |    ||   | || ||||||||||| |  ||||||||||| ||||| || |||||||||||||| ||||||||||||||||||||||||||  ||||||| ||||||
atctttgttgaagtgttagtgttacttgatgctatataaattaaatatgtatttgttgtatcttattgtctttccatc---ctcacttttaaattccaaacagGCATATGATCCTCCAGCTGGTTATGACATTCCTTATTTCAGACCCACAATTGATGAAACAGTACGAGGGCAGGGTTTGTCATCTCCTCAGGAG
















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|37188830|gb|CF608179.1|CF608179
EST:     CTCCAGAGTCACAACAGCAGCAAGAACGTCATGTCTTACCGAGTTTTCCT                         CATGCATATGATCCCCAGGCTGGTTATGATATTCCGTACTTCAGACCCACA
genomic: CTCCAGAGTCACAACAGCAGCAAGAACGTCATGTCTTACCGAGTTTTCCTgtgagtttag ... tgtttggtagCATGCATATGATCCCCAGGCTGGTTATGATATTCCGTACTTCAGACCCACA
EST: gi|30297212|gb|CB974006.1|CB974006
EST:     CTCCAGAGTCACAACAGCAGCAAGAACGTCATGTCTTACCGAGTTTTCCT                         CATGCATATGATCCCCAGGCTGGTTATGATATTCCGTACTTCAGACCCACA
genomic: CTCCAGAGTCACAACAGCAGCAAGAACGTCATGTCTTACCGAGTTTTCCTgtgagtttag ... tgtttggtagCATGCATATGATCCCCAGGCTGGTTATGATATTCCGTACTTCAGACCCACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttattctatcctggttcttatgatgagacattctgacttgccatctgtttggtagCATGCATATGATCCCCAGGCTGGTTATGATATTCCGTACTTCAGACCCACAATGGATGAAACAGTACGAGGGCAGGGTTTACCATCTCCCCAGGAG
                              ttctgac  putative branch site (score: 2)
                                           tctgttt  putative PPT
              ttcttat  TA-rich tract