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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATCACCAAAGCAGGTGCGGACCGTGTTCTTGCTTGTGATCTTCATTCTGGGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatttttaagccattgtttgatccttatctttttctgactccatatcactgaatgaaattactgtttgttttgtgcacacaag

Basic information

species Vitis vinifera
transcript Vv02s0012g00530.t01
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv02s0012g00530.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA17G16400.4 (Glycine max), 5'ss of exon 4
TATCACCAAAGCAGGTGCGGACCGTGTTCTTGCTTGTGATCTTCATTCTGGGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatttttaagccattgtttgatccttatctttttctgactccatatcactgaatgaaattactgtttgttttgtgcacacaag
||| || ||||| || || |||||||||||||||||||| |||||||| ||||||||||||||||||||||||||||||||||||||  || | ||||| |||| |||  | | |     ||||||    |||| | ||   ||   ||| |  || |       ||||  || | |  ||  | | ||
TATTACAAAAGCTGGGGCAGACCGTGTTCTTGCTTGTGACCTTCATTCAGGGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCATGTACACTGTCAAgtaagtaagctatgaa----tgtttgtagtttatttctt---gaaaacatttt-ctaa-------tactacttttatgatgtcctctag

upper sequence: Vv02s0012g00530.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: GLYMA05G06110.1 (Glycine max), 5'ss of exon 4
TATCACCAAAGCAGGTGCGGACCGTGTTCTTGCTTGTGATCTTCATTCTGGGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatttttaagccattgtttgatccttatctttttctgactccatatcactgaatgaaattactgtttgttttgtgcacacaag
||| || ||||| || || ||||||||||| |||||||| |||||||| |||||||||||||||||||||||||||||||| |||||  || | |||||||||| ||  || | |    ||||       |||| | ||  | ||   || |  |  |||   | || ||||| |  ||| |||     
TATTACAAAAGCTGGGGCAGACCGTGTTCTCGCTTGTGACCTTCATTCAGGGCAGTCCATGGGTTACTTTGATATTCCTGTTGATCATGTACACTGTCAGgtaagtaggttcttaatggttgtag----tttatttattggtaac---atgtttcctaat---actattgtttatgatgtccactag--

upper sequence: Vv02s0012g00530.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT2G35390.3 (Arabidopsis thaliana), 5'ss of exon 3
TATCACCAAAGCAGGTGCGGACCGTGTTCTTGCTTGTGATCTTCATTCTGGGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatttttaagccat-tgtttgatccttatcttttt---ctgactccatatcact----gaatgaaattactgtttgttttgtgcacacaag
||||||  |||| ||||| || || ||||||||||||||||||||||| || ||||| |||||||| ||||| ||||| || || ||  | || || |||||  | |  | | ||||||  |  ||||| |   ||||| |    ||  |  ||    ||    | || | |    | | || ||  |     ||  
TATCACTGAAGCTGGTGCAGATCGAGTTCTTGCTTGTGATCTTCATTCAGGACAGTCGATGGGTTATTTTGACATTCCAGTCGACCATGTGTACTGCCAGgt--tcacctctaaagccacgttcttgatacccctctttatgcattgtgtgtatgctcctttgtgtataatacctttatctgcttaattgtttcag-

upper sequence: Vv02s0012g00530.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: AT1G32380.1 (Arabidopsis thaliana), 5'ss of exon 4
TATCACCAAAGCAGGTGCGGACCGTGTTCTTGCTTGTGATCTTCATTCTGGGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaa-ttaatttttaagccatt-gtttgat---ccttatctttttctg-actccatatcactgaatgaaattactgtttgttttgtgcacacaag
||| ||  |||| ||||| ||  | ||||| ||||||||||||||||| || || ||||||||||| ||||| || || ||||||||  | ||||| ||||||  |||| ||| || |  || | | ||    |||   |||||| || |  |  ||  |    |   ||||    ||   |||  |        
TATAACAGAAGCCGGTGCAGATAGGGTTCTGGCTTGTGATCTTCATTCAGGACAATCCATGGGTTATTTTGACATACCAGTGGATCATGTCTATTGCCAGgtatcttaagtttcaacctttttgatagacaagcctctactttttatgcaacctttaaaatcttacacaattgtgattacatttcag--------

upper sequence: Vv02s0012g00530.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: PP1S42_193V6.2 (Physcomitrella patens), 5'ss of exon 4
TATCACCAAAGCAGGTGCGGACCGTGTTCTTGCTTGTGATCTTCATTCTGGGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaatta--atttttaagccattgtttgatccttatctttttctg-actccatatcactgaatgaaattactgtttgttttgtgcacacaag----------------------------
 |||||  | || || ||  |  | || || ||||||||||||||||| |||||||| ||||| || ||||| ||| | || |||||| | ||| ||||||| | ||  ||| |||   | |  ||| | |     | || | |      | |   ||    | |  ||| | |||    | || |                                  
AATCACTGAGGCTGGAGCCAATAGAGTGCTGGCTTGTGATCTTCATTCAGGGCAGTCAATGGGATATTTTGACATTTCCGTTGATCACGTTTATGGTCAGgtgagtatgattcttagctcgtacttttaccaagtgcattatgtatgggtcgtgcaacgaggtaactttattcttttcgctttgaatgacctttgattaatctcggagccttgtgtgcag

upper sequence: Vv02s0012g00530.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: PP1S123_105V6.1 (Physcomitrella patens), 5'ss of exon 4
TATCACCAAAGCAGGTGCGGACCGTGTTCTTGCTTGTGATCTTCATTCTGGGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatttttaagccattgtttgatccttatcttt----ttctgactccatatcactgaatgaaattactgttt-gttttgtgcacacaag-------------------------------------------------------------------------------------
 || ||  |||| || ||  |  | ||  | |||||||||||||| || || |||||||||||||||||||| ||| |||| |||||  | ||| ||||||| |  | |||   |    || ||   |  |||| |||    ||   | |  | |    |   |    ||| | ||| ||| |   | | ||||                                                                                     
AATTACTGAAGCTGGGGCCAATAGAGTATTGGCTTGTGATCTTCACTCAGGCCAGTCCATGGGTTACTTTGACATTTCTGTCGATCATGTGTATGGTCAGgtgagcattttaacaagttttattattttattatttttaaaatttaaattttaaaattattgttattcttatttttttgttattctccctcaagtgtaacatgttctatttgtgctcggaggaaaattcacatgttttattttaaaggttattgtctaattgggaaaccttgtatgcag

upper sequence: Vv02s0012g00530.t01 (Vitis vinifera), 5'ss of exon 4
lower sequence: EFJ24123 (Selaginella moellendorffii), 5'ss of exon 4
TATCACCAAAGCAGGTGCGGACCGTGTTCTTGCTTGTGATCTTCATTCTGGGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatttttaagccattgtttgatccttatctttttctgactccatatcactgaatgaaattactgt-ttgttttgtgcacacaag
||| ||  | ||||||||  | ||||||||||| ||||||||||| ||||| ||    ||||| ||||| ||||||||||| |||||| | ||| | ||||||                   | ||   | ||| ||| ||    ||   ||  | | || ||||  || |  | |||  ||||      
TATAACTGAGGCAGGTGCAAATCGTGTTCTTGCGTGTGATCTTCACTCTGGACAAAGTATGGGGTACTTCGATATTCCTGTTGATCACGTCTATGGACAGgta-------------------tgtgcgtcatatttttctcaacgtcaccattcccgtataaaatctctttgctctttcttgcag-----

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|351052954|gb|FQ453941.1|FQ453941
EST:     GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATNGTCAG                         CCTGTGATTCTTGATTATCTTGC
genomic: GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatt ... tgcacacaagCCTGTGATTCTTGATTATCTTGC
EST: gi|45368105|gb|CK906464.1|CK906464
EST:     GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAG                         CCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGTAATGATTTG
genomic: GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatt ... tgcacacaagCCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGTAATGATTTG
EST: gi|351033460|gb|FQ462111.1|FQ462111
EST:     GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAG                         CCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGTAATGATTTG
genomic: GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatt ... tgcacacaagCCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGTAATGATTTG
EST: gi|110376340|gb|EC941395.1|EC941395
EST:     GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAG                         CCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGTAATGATTTG
genomic: GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatt ... tgcacacaagCCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGTAATGATTTG
EST: gi|30253361|gb|CB970912.1|CB970912
EST:     GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAG                         CCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGTAATGATTTG
genomic: GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatt ... tgcacacaagCCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGTAATGATTTG
EST: gi|30253440|gb|CB970991.1|CB970991
EST:     GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAG                         CCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGTAATGATTTG
genomic: GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatt ... tgcacacaagCCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGTAATGATTTG
EST: gi|110698297|gb|EE075660.1|EE075660
EST:     GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAG                         CCTGTGATTCTTGATTATCTTGCCAGCAAGAACA-TTTGGTGTAATGGATT
genomic: GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatt ... tgcacacaagCCTGTGATTCTTGATTATCTTGCCAGCAAGA-CAATTTGTTGTAATG-ATT
EST: gi|352789974|gb|FQ479584.1|FQ479584
EST:     GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAG                         CCTGTGATTCTTGATTATCTTGCCCGCAAGACAATTTGTTGT
genomic: GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatt ... tgcacacaagCCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGT
EST: gi|30129654|gb|CB914993.1|CB914993
EST:     GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAG                         CCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGTAATGATTTG
genomic: GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatt ... tgcacacaagCCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGTAATGATTTG
EST: gi|161721761|gb|FC071122.1|FC071122
EST:     GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAG                         CCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGTAATGATTTG
genomic: GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatt ... tgcacacaagCCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTTGTTGTAATGATTTG
EST: gi|351030850|gb|FQ438886.1|FQ438886
EST:     GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAG                         CCTGTGATTCTTGATTATCTTGGCAGCAAGACAATTTTGTTGTA
genomic: GGCAGTCCATGGGTTACTTTGATATTCCTGTGGATCACATATATTGTCAGgtaattaatt ... tgcacacaagCCTGTGATTCTTGATTATCTTGCCAGCAAGACAATTT-GTTGTA