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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtgcattgatttctttgctggaaactctgctttattttatgcttagctgattttcagacttcattgttgtgtttgtaatcagTGAATTTGGGGCGAAGGTTGTTCCACCAAAAAGAATTTTGAAAATGCTTCCTGAACTCTTCGATCATCAAGACCAAAATGTTCGTGCATCCTCTAAAGGA

Basic information

species Vitis vinifera
transcript Vv10s0116g00490.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0116g00490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g60040.2 (Oryza sativa), 3'ss of exon 4
gtttgtgcattgatttctttgctggaaactctgctttattttatgcttagctgattttcagacttcattgttgtgtttgta--atcagTGAATTTGGGGCGAAGGTTGTTCCACCAAAAAGAATTTTGAAAATGCTTCCTGAACTCTTCGATCATCAAGACCAAAATGTTCGTGCATCCTCTAAAGGA
          | |  || | | || |   |   | |  | ||||  ||      ||||   ||||||||    | ||| |   |  ||||||||||| || ||||| || ||||| |||| ||| ||||| ||||||||||| || || ||||||| ||| || |||||||| || || || || || 
---------gtaagctcatagttgtatttttgccatcctgttatattttt----tttttgtacttcattaacatctttcttctactagTGAATTTGGAGCTAAGGTAGTACCACCCAAAAAAATATTGAAGATGCTTCCTGAGCTGTTTGATCATCCAGATCAGAATGTTCGGGCTTCATCCAAGGGT

upper sequence: Vv10s0116g00490.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G29520.1 (Glycine max), 3'ss of exon 1
gtttgtgcattgatttctttgctggaaactctgctttattttatgcttagctgattttcagacttcattgttgtgtttgtaatcagTGAATTTGGGGCGAAGGTTGTTCCACCAAAAAGAATTTTGAAAATGCTTCCTGAACTCTTCGATCATCAAGACCAAAATGTTCGTGCATCCTCTAAAGGA
||||| |   |  ||  |       | |   | ||||  ||| |  |||    || || |    | ||| || | | ||     ||||| ||||| || ||  |||| || ||||||||||||||||| |||||||| |||||||| ||||||||||| |||||||||||||||||||||||||| 
gtttgagatctctttgatgcaacatatataatacttttcttttt--ttaatgaatgttaaacaattattattttttatgctgctagTGATTTTGGAGCAAAAATTGTGCCCCCAAAAAGAATTTTGAAGATGCTTCCAGAACTCTTTGATCATCAAGATCAAAATGTTCGTGCATCCTCTAAAGGG
















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|34549765|gb|CF517997.1|CF517997
EST:     GTTGCCAAAGCAGTTGTACCTGCCATTGATGTTATGTTCCAAGCCCTAAG                         TGAATTTGGGGCGAAGGTTGTTCCACC
genomic: GTTGCCAAAGCAGTTGTACCTGCCATTGATGTTATGTTCCAAGCCCTAAGgtttgtgcat ... ttgtaatcagTGAATTTGGGGCGAAGGTTGTTCCACC
EST: gi|34550714|gb|CF518932.1|CF518932
EST:     GTTGCCAAAGCAGTTGTACCTGCCATTGATGTTATGTTCCAAGCCCTAAG                         TGAATTTGGGGCGAAGGTTGTTCCACC
genomic: GTTGCCAAAGCAGTTGTACCTGCCATTGATGTTATGTTCCAAGCCCTAAGgtttgtgcat ... ttgtaatcagTGAATTTGGGGCGAAGGTTGTTCCACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctttattttatgcttagctgattttcagacttcattgttgtgtttgtaatcagTGAATTTGGGGCGAAGGTTGTTCCACCAAAAAGAATTTTGAAAATGCTTCCTGAACTCTTCGATCATCAAGACCAAAATGTTCGTGCATCCTCTAAAGGA
                 agctgat  putative branch site (score: 4)
     tattttat  TA-rich tract