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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagcattattcacctctaatcacaatatatttctgaaactagtaatttcatgcagacagatagatttgtgattttctttgaaacacccttttttttgtgtgtgtgcgtgaaaatagATCCTGACATGCTTGAGGTAGGAAATGGGGGAATGACTAATGATGAATACATAGTCCACTTCAGCATATGGGCTATTTCCAAG

Basic information

species Vitis vinifera
transcript Vv10s0071g01100.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0071g01100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA18G44820.1 (Glycine max), 3'ss of exon 10
gttagcattattcacctctaatcacaatatatttctgaaactagtaatttcatgcagacagatagatttgtgattttctttgaaacacccttttttttgtgtgtgtgcgtgaaaatagATCCTGACATGCTTGAGGTAGGAAATGGGGGAATGACTAATGATGAATACATAGTCCACTTCAGCATATGGGCTATTTCCAAG
                          | | |||  | || || |   |||  || |       |||| | | ||    ||   | ||   | ||  |||    ||||  |  ||  ||||||||| ||||||||||| |||||||| || ||||| ||  ||||||| || || ||||||||  |||||||  ||||||| 
----------------------ggttagaaattcgttaaccttgcgtttttctgaa-------agatattttatccaattgagatcattatattcattgaacatgtgaattcaa-caGATCCTGATATGCTTGAGGTGGGAAATGGAGGGATGACAAAAAATGAATATATTGTTCACTTCAGTTTATGGGCCCTTTCCAA-

upper sequence: Vv10s0071g01100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA09G40990.1 (Glycine max), 3'ss of exon 10
gttagcattattcacctctaatcacaatatatttctgaaactagtaatttcatgcagacagatagatttgtgattttctttgaaacacccttttttttgtgtgtgtgcgtgaaaatagATCCTGACATGCTTGAGGTAGGAAATGGGGGAATGACTAATGATGAATACATAGTCCACTTCAGCATATGGGCTATTTCCAAG
                     | | |||   ||  | || || ||  |||    | || |||||  ||    | ||     ||  |||  | |   |||   |||||  |  ||  ||||||||| ||||||||||| |||||||| || ||||| ||  ||||||| |  || ||||||||  |||||||  ||||||||
--------------------gttagaat---ttcattaaccttgtgttttt---ccgaaagatattttctccaattga---gagtcacgatatccattgaacgtgtgaattcaa-cagATCCTGATATGCTTGAGGTGGGAAATGGAGGGATGACAAAAAATGAATATACTGTTCACTTCAGTTTATGGGCCCTTTCCAAG

upper sequence: Vv10s0071g01100.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT5G08380.1 (Arabidopsis thaliana), 3'ss of exon 10
gttagcattattcacctctaatcacaatatatttctgaaactagtaatttcatgcagacagatagatttgtgatt-ttctttgaaacacccttttttttgtgtgtgtgcgtgaaaatagATCCTGACATGCTTGAGGTAGGAAATGGGGGAATGACTAATGATGAATACATAGTCCACTTCAGCATATGGGCTATTTCCAAG
    | | | ||    ||| |   ||| | | | ||   |||   |  ||  ||||||      ||    ||||  ||   |||        |   ||||  |||     ||     ||| || || |||||||| || |||||||| || ||||| || || || ||||||||||| |||||||||||||| || || |||
----gtactgttattatctca--gcaagagactactactactttaagcttgttgcagattttgtgaaggatgataatttcatgatgagtgggtgactttgc-tgt-----tggttgcagACCCGGATATGCTTGAAGTGGGAAATGGAGGGATGACAAAAGACGAGTACATAGTCCATTTCAGCATATGGGCAATCTCAAAG

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|110702413|gb|EE081097.1|EE081097
EST:     TGATATGAATGATGTTTATGCTCAGTATGCAAGACCTGGTGGTTGGAATG                         ATCCTGACATGCTTGAGGTAGGAAATGGGGGAATGACTAATGATGAATACA
genomic: TGATATGAATGATGTTTATGCTCAGTATGCAAGACCTGGTGGTTGGAATGgttagcatta ... gtgaaaatagATCCTGACATGCTTGAGGTAGGAAATGGGGGAATGACTAATGATGAATACA
EST: gi|34362870|gb|CF404455.1|CF404455
EST:     TGATATGAATGATGTTTATGCTCAGTATGCAAGACCTGTTGGTTGGAATG                         ATCCTGACATGCTTGAGGTAGGAAATGGGGGAATGACTAATGATGAATACA
genomic: TGATATGAATGATGTTTATGCTCAGTATGCAAGACCTGGTGGTTGGAATGgttagcatta ... gtgaaaatagATCCTGACATGCTTGAGGTAGGAAATGGGGGAATGACTAATGATGAATACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agatttgtgattttctttgaaacacccttttttttgtgtgtgtgcgtgaaaatagATCCTGACATGCTTGAGGTAGGAAATGGGGGAATGACTAATGATGAATACATAGTCCACTTCAGCATATGGGCTATTTCCAAG
                           ttttttttgt  TA-rich tract