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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagcttcttttccttctaggatgcattcttgaaaaagatttatcgatgaactaggaaaatcactgcttcattgtcacttcttcaagcttacatagttttctgttttttaccgcctcagTAGCTGGAGTTTGGGGACTTCTAGCTCTTCACCTGGCTGATGATCCTATTTTACCTTTCAACTATGTCTCTTACACAGAACAATTATGG

Basic information

species Vitis vinifera
transcript Vv08s0032g00670.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0032g00670.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G36430.1 (Glycine max), 3'ss of exon 6
gttagcttcttttccttctaggatg-cattcttgaaaaagatttatcgatgaactaggaaaatcactgcttcattgtcacttcttcaagcttacatagttttctgttttttaccgcctcagTAGCTGGAGTTTGGGGACTTCTAGCTCTTCACCTGGCTGATGATCCTATTTTACCTTTCAACTATGTCTCTTACACAGAACAATTATGG
||||| ||  | |  |  | |  |   ||  || | ||   | |||        |  |  ||    |  | ||| ||  |      ||| |   |   ||||||||| |||   |    |||  | ||||||||||| ||||||||||||||| ||||||||||||| ||| | |||||||| || || || ||  || |  | ||   |
gttagatttctcttttaattgcttaatatggtttacaagtctctatt------tttagtgaactgttaatccat-gtggcagtcataagatgtaac--ttttctgttctttgttgtaatagTTACAGGAGTTTGGGGGCTTCTAGCTCTTCACTTGGCTGATGATCCCATTCTTCCTTTCAATTACGTTTCATATGCAAATGAGTTGCAG

upper sequence: Vv08s0032g00670.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G23220.1 (Glycine max), 3'ss of exon 7
gttagcttcttttccttctaggatgcattcttgaaaaagatttatcgatgaactaggaaaatcactgcttcattgtcacttcttcaagcttacatagttttctgttttttaccgcctcagTAGCTGGAGTTTGGGGACTTCTAGCTCTTCACCTGGCTGATGATCCTATTTTACCTTTCAACTATGTCTCTTACACAGAACAATTATGG--------
||||| || || |  || | |  |  |   ||  |      || |  |||||||  | |||||  ||      || || |  |   |  ||||    ||||||||| |||   |    |   | |||||||||||| ||| |||| |||||| |||||||||||||| || | |||||||| || ||  | ||  || |  | |||  |        
gttagatttttctt-ttatggtttaaaagtttcta------tttttaatgaact--gtaaatccatg------tgacagtcataagatgttac----ttttctgttctttgttgt---aactgttggagtttgggggcttgtagCCCTTCACTTGGCTGATGATCCTGTTCTTCCTTTCAATTACGTTCCATATGCAAATTAGTTACAGTTACAGGT

upper sequence: Vv08s0032g00670.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G39080.1 (Glycine max), 3'ss of exon 6
gttagcttcttttccttctaggatgcattcttgaaaaagatttatcgatgaactaggaaaatcactgcttcattgtcacttcttcaagcttacatagttttctgttttttaccgcctcagTAGCTGGAGTTTGGGGACTTCTAGCTCTTCACCTGGCTGATGATCCTATTTTACCTTTCAACTATGTCTCTTACACAGAACAATTATGG
||||| ||  |   ||| ||  |||  ||    |     |||| |  |||||||  | |||||  ||   ||  ||||        |   |  | | |||||||| ||||   |   ||||  ||||||||||||| ||||| || |||||| |||||||||||||  || | |||||||| || ||  | ||  || |  | |||  |
gttagatttct---cttttaatatggtttaaaaatgtttattttttaatgaact--gtaaatccatgtgaca--gtca-------gaagatgta-aattttctgtgttttgttgtaacagTTACTGGAGTTTGGGGGCTTCTGGCCCTTCACTTGGCTGATGATCCCGTTCTTCCTTTCAATTACGTTCCATATGCAAATGAGTTACAG

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|110377414|gb|EC942476.1|EC942476
EST:     TGACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCATGTGGCTG                         TAGCTGGAGTTTGGGGACTTCTAGCTCTTCACCTGGCTGATGATCCTATTT
genomic: TGACTGGATGACAAACCATGGGGATCCATTGTTTCAACGTCATGTGGCTGgttagcttct ... accgcctcagTAGCTGGAGTTTGGGGACTTCTAGCTCTTCACCTGGCTGATGATCCTATTT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcttcattgtcacttcttcaagcttacatagttttctgttttttaccgcctcagTAGCTGGAGTTTGGGGACTTCTAGCTCTTCACCTGGCTGATGATCCTATTTTACCTTTCAACTATGTCTCTTACACAGAACAATTATGG
                     agcttac  putative branch site (score: 3)
                                ttttctgttttttacc  putative PPT
                                ttttctgtttttta  TA-rich tract