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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgattcagacataattctttcaaatcttcaagacacatcctaaaacccatactcaagactaaaaatgataacttgtattttgcagCTTGATGTTCTTTCCAATGGGAATTCCTTACATGAAGTGGCACACATTGCCAATGGCTCTCATCCAGGAAACTGCATTTCTCTTCTTCGCATCAAT

Basic information

species Vitis vinifera
transcript Vv02s0012g02030.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0012g02030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os10g42490.1 (Oryza sativa), 3'ss of exon 10
---------------gtttgattcagaca-taattctttcaaatcttcaagacacatcctaaaacccatactcaagactaaaaatgataacttgtattttgcagCTTGATGTTCTTTCCAATGGGAATTCCTTACATGAAGTGGCACACATTGCCAATGGCTCTCATCCAGGAAACTGCATTTCTCTTCTTCGCATCAAT
                | | ||  |  || |   |  |  ||||  |       || | || ||  | |  |   |   |    || ||| |||  |||||||||||||  || | || || ||    ||| | ||||| |||||||| ||||| ||||| || |||||| | || ||||| |||||||||||||| || 
gtacaatgaagagccatataatatactcagtccatactgaaaattgttgttgttcaccttataattcgttgt---ggtcatgtttgttaatttgccttttgcagCTTGAGATTTTGTCAAACGGCGGCTCCCTTCATGAGGTGGCACATATTGCAAATGGATCACATCCAAGGAATTGCATCTCTCTTCTTCGCATTAAC

upper sequence: Vv02s0012g02030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA09G34070.1 (Glycine max), 3'ss of exon 9
---gtttgattcagacataattct---ttcaaatctt----caagacacatcctaaaacccatactcaagactaaaaatgataacttgtattttg---cagCTTGATGTTCTTTCCAATGGGAATTCCTTACATGAAGTGGCACACATTGCCAATGGCTCTCATCCAGGAAACTGCATTTCTCTTCTTCGCATCAAT
   ||   |  |    | |||||    ||||| ||||    ||   ||  |  |||     | ||| | || ||   |   |   || | ||||    ||| | |||| ||||||||||||||| || ||  |||||||||| || ||||| |||||||| |||||||||||||||||||||||||||||||| |||
gtagtgcaaaccctttacaattcaatattcaactcttaatccattgcattttttaacggtta-actgatgaatatccactttcttttttcttttttgtcagATGGATGCTCTTTCCAATGGGAACTCATTGAATGAAGTGGCTCATATTGCAAATGGCTCACATCCAGGAAACTGCATTTCTCTTCTTCGCATAAAT

upper sequence: Vv02s0012g02030.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA01G01850.1 (Glycine max), 3'ss of exon 9
---------------------------gtttg-attcagacataattctttcaaatcttcaagacacatcctaaaacccatactcaagactaaa-aatgataacttgtatttt---------gcagCTTGATGTTCTTTCCAATGGGAATTCCTTACATGAAGTGGCACACATTGCCAATGGCTCTCATCCAGGAAACTGCATTTCTCTTCTTCGCATCAAT
                            | || | |||   |||||||  | ||  ||  |  |   |||| |   |   |  | | |  |||   ||||  |  | | ||||         |||| | |||  |||||| || ||||| || ||  |||||||||| || ||||| |||||||| |||||||||||||||||||||||||||||||| |||
gtagtgcaaacccatgtatcagatccaatctgcaatcatttataattcaattaatactcaactattaatcc-attgcattttttaacggttaactgatgaatatctatttttttattttttggcagATGGATACTCTTTCAAACGGGAACTCATTGAATGAAGTGGCTCATATTGCAAATGGCTCACATCCAGGAAACTGCATTTCTCTTCTTCGCATAAAT

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|30255074|gb|CB971521.1|CB971521
EST:     TTGATCTCTTGAG-GANTGNGCGTAGGATCGCTCAG                         CTTGATGTCCTTTCCAATGGGAATTCCTTACATGAAGTGGCACACATTGCC
genomic: TTGATCTCTTGAGAGA-TGAACGTAGGAGAGCTCAGgtttgattca ... tattttgcagCTTGATGTTCTTTCCAATGGGAATTCCTTACATGAAGTGGCACACATTGCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agacacatcctaaaacccatactcaagactaaaaatgataacttgtattttgcagCTTGATGTTCTTTCCAATGGGAATTCCTTACATGAAGTGGCACACATTGCCAATGGCTCTCATCCAGGAAACTGCATTTCTCTTCTTCGCATCAAT
                                   tgataac  putative branch site (score: 2)
                             taaaaatgataacttg  TA-rich tract