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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attattattattattattattattattatttttagtattattatttctttacagtttatcatctaacacctttcttgttatttgtaatttttttttttagGAGTTGTCTATTACCTCTGATGAGGCTTTGAGTTTGGATGAGTTGCCCAAGCGTGCTGTAATACTAGGGGGAGG

Basic information

species Vitis vinifera
transcript Vv05s0051g00870.t01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0051g00870.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G24170.1 (Arabidopsis thaliana), 3'ss of exon 6
attattattattattattattattattatttttagtattattatttctttacagtttatcatctaacacctttcttgttatttgtaa-tttttttttttagGAGTTGTCTATTACCTCTGATGAGGCTTTGAGTTTGGATGAGTTGCCCAAGCGTGCTGTAATACTAGGGGGAGG
  | ||   | ||| |||  | | | |   | | ||   |  |  | || || | |  | ||  ||   |      |||||   |||  | | |||| |||||| || ||||||| |||||||| |||||||| ||||| || || |||||||||||| || | || || |||||
tatgtttgcaatatgatttctctaaattagtct-gtgagaaaaactattaactgctatttatggaaagtccactgagttatacataaactgtcttttatagGAGCTGGCTATTACATCTGATGAAGCTTTGAGCTTGGAAGAATTTCCCAAGCGTGCTATAGTGCTTGGAGGAGG
















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|46917982|gb|CN547311.1|CN547311
EST:     TATTGATTGCAACTGGTAGTAGGGCTCAACGTCCAACTATTCCAGGGCAG                         GAGTTGTCTATTACCTCTGATGAGGCTTTGAGTTTGGATGAGTTGCCCAAG
genomic: TATTGATTGCAACTGGTAGTAGGGCTCAACGTCCAACTATTCCAGGGCAGgtaaattttc ... ttttttttagGAGTTGTCTATTACCTCTGATGAGGCTTTGAGTTTGGATGAGTTGCCCAAG
EST: gi|294967112|gb|GW839987.1|GW839987
EST:     TATTGATTGCAACTGGTAGTAGGGCTCAACGTCCAACTATTCCAGGNCAG                         GAGTTGTCTATTACCTCTGATGAGGCTTTGAGTTTGGATGAGTTGCCCAAG
genomic: TATTGATTGCAACTGGTAGTAGGGCTCAACGTCCAACTATTCCAGGGCAGgtaaattttc ... ttttttttagGAGTTGTCTATTACCTCTGATGAGGCTTTGAGTTTGGATGAGTTGCCCAAG
EST: gi|161717161|gb|FC065924.1|FC065924
EST:     TATTGATTGCAACTGGTAGTAGGGCTCAACGTCCAACTATTCCAGGGCAG                         GAGTTGTCTATTACCTCTGATGAGGCTTTGAGTTTGGATGAGTTGCCCCAG
genomic: TATTGATTGCAACTGGTAGTAGGGCTCAACGTCCAACTATTCCAGGGCAGgtaaattttc ... ttttttttagGAGTTGTCTATTACCTCTGATGAGGCTTTGAGTTTGGATGAGTTGCCCAAG
EST: gi|110729876|gb|EE106312.1|EE106312
EST:     CTCAACGTCCAACTATTCCAGGGCAG                         GAGTTGTCTATTACCTCTGATGAGGCTTTGAGTTTGGATGAGTTGCCCAAG
genomic: CTCAACGTCCAACTATTCCAGGGCAGgtaaattttc ... ttttttttagGAGTTGTCTATTACCTCTGATGAGGCTTTGAGTTTGGATGAGTTGCCCAAG
EST: gi|110699093|gb|EE077335.1|EE077335
EST:     TATTGATTGCAACTGGTAGTAGGGCTCAACGTCCAACTATTCCAGGGCAG                         GAGTTGTCTATTACCTCTGATGAGGCTTTGAGTTTGGATGAGTTGCCCAAG
genomic: TATTGATTGCAACTGGTAGTAGGGCTCAACGTCCAACTATTCCAGGGCAGgtaaattttc ... ttttttttagGAGTTGTCTATTACCTCTGATGAGGCTTTGAGTTTGGATGAGTTGCCCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttacagtttatcatctaacacctttcttgttatttgtaatttttttttttagGAGTTGTCTATTACCTCTGATGAGGCTTTGAGTTTGGATGAGTTGCCCAAGCGTGCTGTAATACTAGGGGGAGG
               atctaac  putative branch site (score: 2)
                                       taattttttttttt  putative PPT
                         tttcttgttatttgta  TA-rich tract