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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgactgttgttaattcagtttgctctttttaattgttgattaactttgttattgttatcattattacaattacttttagaagtctatccagttgttagattgtttctaatctgttgcttgttgtggtatttttcttagATTATCCAACATATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACAACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAG

Basic information

species Vitis vinifera
transcript Vv01s0010g01740.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0010g01740.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G02180.1 (Arabidopsis thaliana), 3'ss of exon 3
gtctgactgttgttaattcagtttgctctttttaattgttgattaactttgttattgttatcattattacaattacttttagaagtctatccagttgttagattgtttctaatctgttg-cttgttgtggtatttttcttagATTATCCAACATATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACAACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAG
                                               |||   ||  ||  ||  || |   | | |||   ||   |||  | |||||  ||||| || |   | |    |||  ||| ||| ||| | ||||| | ||||||||||| |||||||| |||||||||||||||||||| |||||||||||| ||||  | |||||||| ||||| || ||||||
----------------------------------------------gtttaggatcatt--caccatcattgtaatttt---aatcttattgacttgttt-attgtgtcaaccttctaaatttgcagtgttatctttgt-agATTCTGCAACATATCTTGCTTGATATTCCAAGTCTTGCTTTCTTCACCACCTATGCTCTTCTGGTTCTTTTCTGGGCTGAAATTTATTATCAG

upper sequence: Vv01s0010g01740.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G14530.1 (Arabidopsis thaliana), 3'ss of exon 3
gtctgactgttgttaattcagtttgctctttttaattgttgattaactttgttattgttatcattattacaattacttttagaagtctatccagttgttagattgtttctaatctgttgcttgttgt--ggtatttttcttagATTATCCAACATATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACAACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAG
                                               |||| | ||  |||   ||||   |||     |    |    || | |||  |     ||||||| ||      | | ||  ||| ||| |  |||||| | |||||||||||||||||||| |||||||||||||||||||| || ||||| ||| ||||  | || |||||||| || ||||| |||
----------------------------------------------gtttggtgtttctattgatattgtgatttagcctcattgatggtctatttgaaa-----tttctaaacttgcaagtatcgttcggtttttcttgtagATTCTGCAACATATCTTACTTGATATTCCAAGTCTTGCTTTCTTCACTACATATGCGCTTCTGGTTCTCTTTTGGGCAGAGATTTACTACCAG
















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|349816624|gb|FQ399613.1|FQ399613
EST:     GATCACTAGTTTTTGTGTTCCGCAGAAATGTGCAGCGCCTGCATCCAGAG                         ATTATCCAACACATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACGACC
genomic: GATCACTAGTTTTTGTGTTCCGCAGAAATGTGCAGCGCCTGCATCCAGAGgtctgactgt ... tttttcttagATTATCCAACATATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACAACC
EST: gi|110411137|gb|EC976839.1|EC976839
EST:     GAAATGTGCAGCGCCTGCATCCAGAG                         ATTATCCAACATATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACAACC
genomic: GAAATGTGCAGCGCCTGCATCCAGAGgtctgactgt ... tttttcttagATTATCCAACATATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACAACC
EST: gi|349823327|gb|FQ402526.1|FQ402526
EST:     GATCACTAGTTTTTGTGTTCCGCAGAAATGTGCAGCGCCTGCATCCAGAG                         ATTATCCAACATATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACGACC
genomic: GATCACTAGTTTTTGTGTTCCGCAGAAATGTGCAGCGCCTGCATCCAGAGgtctgactgt ... tttttcttagATTATCCAACATATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACAACC
EST: gi|161718299|gb|FC064760.1|FC064760
EST:     GATCACTAGTTTTTGTGTTCCGCAGAAATGTGCAGCGCCTGCATCCAGAG                         ATTATCCAACATATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACGACC
genomic: GATCACTAGTTTTTGTGTTCCGCAGAAATGTGCAGCGCCTGCATCCAGAGgtctgactgt ... tttttcttagATTATCCAACATATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACAACC
EST: gi|294965642|gb|GW837241.1|GW837241
EST:     GATCACTAGTTTTTGTGTTCCGCAGAAATGTGCAGCGCCTGCATCCAGAG                         ATTATCCAACATATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACAACC
genomic: GATCACTAGTTTTTGTGTTCCGCAGAAATGTGCAGCGCCTGCATCCAGAGgtctgactgt ... tttttcttagATTATCCAACATATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACAACC
EST: gi|349809177|gb|FQ398950.1|FQ398950
EST:     GATCACTAGTTTTTGTGTTCCGCAGAAATGTGCAGCGCCTGCATCCAGAG                         ATTATCCAACATATCTGACTTGATATGCCAAGTCTTGCTTTCTTCACGACC
genomic: GATCACTAGTTTTTGTGTTCCGCAGAAATGTGCAGCGCCTGCATCCAGAGgtctgactgt ... tttttcttagATTATCCAACATATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACAACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctatccagttgttagattgtttctaatctgttgcttgttgtggtatttttcttagATTATCCAACATATCTTACTTGATATGCCAAGTCTTGCTTTCTTCACAACCTATGCTCTTTTGGTATTGTTCTGGGCAGAAATATACTATCAG
                    ttctaat  putative branch site (score: 2)
                                           tatttttctt  putative PPT
                                           tatttttctta  TA-rich tract