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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgtttcatctggaccatcactaaaaatcatcattgatgatggtttcaattgtttttccctaaaatatggaggaaatgattgattcatgttgtttaaagcattcatttgtttgggttccctgcagAAAACTGTCTTTGGTGGGCAACCTAGCAAACCTGACTACAAGGATATACCTTGTGCTGTGTTCTG

Basic information

species Vitis vinifera
transcript Vv05s0051g00870.t01
intron # 13
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 13
lower sequence: LOC_Os02g56850.4 (Oryza sativa), 3'ss of exon 9
gtaagtgtttcatctggaccatcactaaaaatcatcattgatgatggtt-tcaattgtttttccctaaaatatggaggaaatgattgattcatgt-tgtttaaagcattcatttgtttgggttccc---tgcagAAAACTGTCTTTGGTGGGCAACCTAGCAAACCTGACTACAAGGATATACCTTGTGCTGTGTTCTG
                                  | | |||  |  ||     ||  |       |||| |  |   |     |||  ||  | | ||| |||        |||  ||   |       ||||||||||||| |||||||| || || |  |||||||| ||||  ||| ||||||||||||| |||| 
---------------------------------gtaagtgactacagtgactcataatccccttgtaaattgggtgtgttcaaatttctttgtttctgtgtaaccagcaactttactttaatctttaattgcagAAAACTGTGTTTGGTGGCCAGCCAACTAAACCTGATTACAGAGATGTACCTTGTGCTGTTTTCTC
















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|110729876|gb|EE106312.1|EE106312
EST:     ATCGAATGAATCTTACTCCTGTGGCCTTAATGGAGGGAACCTACTTTGCA                         AAAACTGTCTTTGGTGGGCAACCTAGCAAACCTGACTACNAGGATATACCT
genomic: ATCGAATGAATCTTACCCCTGTGGCCTTAATGGAGGGAACCTACTTTGCAgtaagtgttt ... ttccctgcagAAAACTGTCTTTGGTGGGCAACCTAGCAAACCTGACTACAAGGATATACCT
EST: gi|161714653|gb|FC062658.1|FC062658
EST:     AACCTACTTTGCA                         AAAACTGTCTTTGGTGGGCAACCTAGCAAACCTGACTACAAGGATATACCT
genomic: AACCTACTTTGCAgtaagtgttt ... ttccctgcagAAAACTGTCTTTGGTGGGCAACCTAGCAAACCTGACTACAAGGATATACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggaaatgattgattcatgttgtttaaagcattcatttgtttgggttccctgcagAAAACTGTCTTTGGTGGGCAACCTAGCAAACCTGACTACAAGGATATACCTTGTGCTGTGTTCTG
       gattgat  putative branch site (score: 4)
                                             ttccctgc  putative PPT
                   ttgtttaaa  TA-rich tract