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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgctctttatctgctaattttattgtttttgttgctatttagagttagattgctcagttgcttctcctaatccacgacagGCATTCCGGATTGTGAATAAAGAATGGGAATATTCTCATAAGAAGGGGTTTAAGTGCACATTCGAACGGGGTATTTTGCATGTTTATTTCAACTTCAAGC

Basic information

species Vitis vinifera
transcript Vv08s0007g04370.t01
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g04370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA19G37280.1 (Glycine max), 3'ss of exon 12
gtaagtgctctttatctgctaattttattgtttttgttgctatttagagttagattgctcagttgcttctcctaatccacgacagGCATTCCGGATTGTGAATAAAGAATGGGAATATTCTCATAAGAAGGGGTTTAAGTGCACATTCGAACGGGGTATTTTGCATGTTTATTTCAACTTCAAGC
||||||     |||||   |||||||||      | ||   ||||  | | |  || || | || ||| |  |  |||| ||||||| |||||||| || || |||||||||||||||||||||||||| || |||||||| ||||| ||||| || ||| |||| || || ||||| ||||| |
gtaagt--ctattatcctttaattttatgaaggatttta--attttcaatcaatttacttatttccttatgttt-tccatgacagGCTTTCCGGATCGTTAACAAAGAATGGGAATATTCTCATAAGAAAGGTTTTAAGTGTACATTTGAACGTGGAATTCTGCACGTGTACTTCAATTTCAAAC

upper sequence: Vv08s0007g04370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA03G34590.1 (Glycine max), 3'ss of exon 12
gtaagtgctctttatctgctaattttattgtttttgttgctatttagagttagattgctcagttgcttctcctaatccacgacagGCATTCCGGATTGTGAATAAAGAATGGGAATATTCTCATAAGAAGGGGTTTAAGTGCACATTCGAACGGGGTATTTTGCATGTTTATTTCAACTTCAAGC
||||||     |||||   |||||||||      | ||   ||||  | | |  || || | || ||| |  |  |||| ||||||| ||||| ||||| || ||||||||||| |||||||||||||| || ||||||||  |||| ||||| || ||| ||||||| || ||||| ||||| |
gtaagt--ctattatcctttaattttatgaaggatttt-taattttcaatcaatttacttatttccttattttt-tccatgacagGCTTTCCGCATTGTTAACAAAGAATGGGAGTATTCTCATAAGAAAGGTTTTAAGTGTGCATTTGAACGTGGAATTCTGCATGTGTACTTCAATTTCAAAC

upper sequence: Vv08s0007g04370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT1G03910.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaagtgctctttatc----tgctaattttattgtttttgttgctatttagagttagattgctcagttgcttctcctaatccacgacagGCATTCCGGATTGTGAATAAAGAATGGGAATATTCTCATAAGAAGGGGTTTAAGTGCACATTCGAACGGGGTATTTTGCATGTTTATTTCAACTTCAAGC
|||||| ||| | | |    ||    ||| ||  |      |  | ||     | |   ||||||  |   | |     | |    ||||| |||||||||||||||||||||||||| |||||||| ||||| || || || ||||| || || || || ||| ||||| | || |||||||| || |
gtaagtactcgtaaccattatgtgggtttcatcatcacctctcgtgtt----atcattgtgctcaaatttatttttgtttgcttttcagGCGTTCCGGATTGTGAATAAAGAATGGGAGTATTCTCACAAGAAAGGTTTCAAATGCACGTTTGAGCGTGGGATTCTGCATTTGTACTTCAACTTTAAAC

upper sequence: Vv08s0007g04370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: EFJ19424 (Selaginella moellendorffii), 3'ss of exon 9
gtaagtgctctttatctgctaattttattgtttttgttgctatttagagttagattgctcagttgcttctccta-atccacg-acagGCATTCCGGATTGTGAATAAAGAATGGGAATATTCTCATAAGAAGGGGTTTAAGTGCACATTCGAACGGGGTATTTTGCATGTTTATTTCAACTTCAAGC
|| |||| | | |  ||  |  |||| |||||| | ||    |||         ||||| || || |     |   |       ||||| || || ||||| || || |||||||| ||||| || ||||| || || ||||| |||||||| || |||||  | ||||||||||||||||| ||| 
gtgagtgatttgttcctcgttgttttcttgtttgttttttggttt----ccgtgttgctaagatggtgtgtgtgtgtgtgtttgcagGCTTTTCGCATTGTCAACAAGGAATGGGAGTATTCACACAAGAAAGGCTTCAAGTGTACATTCGAGCGAGGTATCCTTCATGTTTATTTCAACTTTAAGA

upper sequence: Vv08s0007g04370.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: EFJ21082 (Selaginella moellendorffii), 3'ss of exon 9
gtaagtgctctttatctgctaattttattgtttttgttgctatttagagttagattgctcagttgcttctcctaatccacgacagGCATTCCGGATTGTGAATAAAGAATGGGAATATTCTCATAAGAAGGGGTTTAAGTGCACATTCGAACGGGGTATTTTGCATGTTTATTTCAACTTCAAGC
|| |||| | | |  ||  |  |||| |||||| | ||    |||         ||||| || || |     |         ||||| || || ||||| || || |||||||| ||||| || ||||| || || ||||| |||||||| || |||||  | ||||||||||||||||| ||| 
gtgagtgatttgttcctcgttgttttcttgtttgttttttggttt----ccgtgttgctaagatggtgtgtgtgtgtt--tgcagGCTTTTCGCATTGTCAACAAGGAATGGGAGTATTCACACAAGAAAGGCTTCAAGTGTACATTCGAGCGAGGTATCCTTCATGTTTATTTCAACTTTAAGA

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|122690231|gb|EC949709.1|EC949709
EST:     GGGAGACGTGCCTGATTAGATTTCACGCTGGGCCACCCTATGAAGATATT                         GCATTCCGGATTGTGAATAAAGAATGGGAATATTCTCATAAGAAGGGGTTT
genomic: GGGAGACGTGCCTGATTAGATTTCACGCTGGGCCACCCTATGAAGATATTgtaagtgctc ... tccacgacagGCATTCCGGATTGTGAATAAAGAATGGGAATATTCTCATAAGAAGGGGTTT
EST: gi|122690351|gb|EC951403.1|EC951403
EST:     GGGAGACGTGCCTGATTAGATTTCACGCTGGGCCACCCTATGAAGATATT                         GCATTCCGGATTGTGAATAAAGAATGGGAATATTCTCATAAGAAGGGGTTT
genomic: GGGAGACGTGCCTGATTAGATTTCACGCTGGGCCACCCTATGAAGATATTgtaagtgctc ... tccacgacagGCATTCCGGATTGTGAATAAAGAATGGGAATATTCTCATAAGAAGGGGTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttgttgctatttagagttagattgctcagttgcttctcctaatccacgacagGCATTCCGGATTGTGAATAAAGAATGGGAATATTCTCATAAGAAGGGGTTTAAGTGCACATTCGAACGGGGTATTTTGCATGTTTATTTCAACTTCAAGC
                                       tcctaat  putative branch site (score: 2)
          tatttaga  TA-rich tract