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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtggatctttagatgaattttgattgtttcatttatgagtacaatgttgcctgtagctccttacttctctttctgagtctgtaggtcacattagaagtttgttctttctattgccttatgcctgacagaagttctgtttatattcatgacacatgactatatgcatcaaaatgcagATTAAGGCAGCCATCTTCACTACCCTTAATAGGAATGGAATGTTTGATAACACACACATTCGACTGTCGCTGACACGTGGGAAAAAG

Basic information

species Vitis vinifera
transcript Vv14s0128g00100.t01
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA10G29770.1 (Glycine max), 3'ss of exon 11
gtgtggatctttagatgaattttgattgtttcatttatgagtacaatgttgcctgtagctccttacttctctttctgagtctgtaggtcacattagaagtttgttctttctattgccttatgcctgacagaagttctgtttatattcatgacacatgactatatgcatcaaaatgcagATTAAGGCAGCCATCTTCACTACCCTTAATAGGAATGGAATGTTTGATAACACACACATTCGACTGTCGCTGACACGTGGGAAAAAG
  |||  | |  |||||  || |  |  |||    | |       |   || |||    |  ||  |   || |   |||   | | ||||  ||   | || || | ||||| | ||| |          |||||| || | | | ||||   |||  | |  | | |||| |||||||||||| ||| || ||||  ||||| | |||||||||||||||||| ||  | ||||||||||| || || ||||| || || |||
--gtgagtttgaagatgctttctattcttttgtcatgtatcactcagaatgtctgcttattttttatagactctgatagtac-tggatcac-ctaagtgcttattttgtctatggtcttgtct--------agttct-ttcacaatgatga---atg--tgttcgtaacaaattgcagATTAAGGAAGCTATTTTCAAAACCCTGATTAGGAATGGAATGTTTGACAATTCCCACATTCGACTTTCTCTAACACGAGGAAAGAAG
















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|33401997|gb|CF207624.1|CF207624
EST:     TTGACTCAGCAAAAGCACTGGCTTTCAACAATGTTCCAACTCGTGAAGAG                         ATTAAGGCAGCCATCTTCACTACCCTTAATAGGAATGGAATGTTTGATAAC
genomic: TTGACTCAGCAAAAGCACTGGCTTTCAACAATGTTCCAACTCGTGAAGAGgtgtggatct ... caaaatgcagATTAAGGCAGCCATCTTCACTACCCTTAATAGGAATGGAATGTTTGATAAC
EST: gi|161706689|gb|FC055067.1|FC055067
EST:     TTGACTCAGCAAAAGCACTGGCTTTCAACAATGTTCCAACTCGTGAAGAG                         ATTAAGGCAGCCATCTTCACTACCCTTAATAGGAATGGAATGTTTGATAAC
genomic: TTGACTCAGCAAAAGCACTGGCTTTCAACAATGTTCCAACTCGTGAAGAGgtgtggatct ... caaaatgcagATTAAGGCAGCCATCTTCACTACCCTTAATAGGAATGGAATGTTTGATAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgacagaagttctgtttatattcatgacacatgactatatgcatcaaaatgcagATTAAGGCAGCCATCTTCACTACCCTTAATAGGAATGGAATGTTTGATAACACACACATTCGACTGTCGCTGACACGTGGGAAAAAG
 gcctgac  putative branch site (score: 3)
               tttatattcat  TA-rich tract