Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgggtactgggtaggtgtttttatttgatttcatctctctctccctctctttccctctctccctcattccctccctctctctctctcaacaatagggaggaagcagaaaagtgaaaaaataaaaataaaaaacaaaaattcctctacatgggctttgataggatgaattgcttttatgagcagGTTGATGGGGAAGGTTGCATCTGATAAGTGTCATAAATGGGTTTTCAAAGAGCCTTCAGAGTGTGAACCAAATGTCTCCAACTACTGGCAGAGTTCTTTT

Basic information

species Vitis vinifera
transcript Vv19s0014g02320.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os11g25920.1 (Oryza sativa), 3'ss of exon 3
gtgggtactgggtaggtgtttttatttgatttcatctctctctccctctctttccctctctccctcattccctccctctctctctctcaacaatagggaggaagcagaaaagtgaaaaaataaaaataaaaaacaaaaattcctctacatgggctttgataggatgaattgcttttatgagcagGTTGATGGGGAAGGTTGCATCTGATAAGTGTCATAAATGGGTTTTCAAAGAGCCTTCAGAGTGTGAACCAAATGTCTCCAACTACTGGCAGAGTTCTTTT
                                                                   |   | |  || || | |   |  | ||     || ||     || |  |   |   ||      || |  |||  |  |  ||| |       || ||   ||||       ||||| ||||||| ||||| || |||||||| ||||| |||||||| ||||| || ||||| || || || || ||  || |||||||||||||||| ||||||
-------------------------------------------------------------------tggtcgctttcactttgttctactactactaccga-gcttttgagcgtgatgttggtaa-----gacgatgatt--ttgatctggaccgctggtgggtg--ctgct-------gcagGCTGATGGGAAAGGTGGCGTCTGATAAATGTCACAAATGGGTCTTCAAGGAACCTTCTGAATGCGAGCCCAACATCGCCAACTACTGGCAGAGCTCTTTT

upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G132251_T01 (Zea mays), 3'ss of exon 3
gtgggtactgggtaggtgtttttatttgatttcatctctctctccctctctttccctctctccctcattccctccctctctctctctcaacaatagggaggaagcagaaaagtgaaaaaataaaaataaaaaacaaaaattcctctacatgggctttgataggatgaattgcttttatgagcagGTTGATGGGGAAGGTTGCATCTGATAAGTGTCATAAATGGGTTTTCAAAGAGCCTTCAGAGTGTGAACCAAATGTCTCCAACTACTGGCAGAGTTCTTTT
                                                                                   || |       | | |  | |||    | | |  ||  |       || ||      ||   |   |||| ||||          |   |  |    ||||| ||||||| ||||| || |||||||| ||||| |||||||| ||||| || ||||| || || || || ||  ||||||||||||||||||| ||||| 
---------------------------------------------------------------------------------agcttttgg-ggcatgcaa-acgcatgtgaatcatgaatgatgtgctcaagaccgtgggtctgattt-tgggttttggacccccttctccttcctgcatgcagGCTGATGGGAAAGGTGGCCTCTGATAAATGTCACAAATGGGTCTTCAAGGAACCTTCTGAATGCGAGCCCAACATCTCCAACTACTGGCAGAGCTCTTTC

upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G302293_T01 (Zea mays), 3'ss of exon 3
gtgggtactgggtaggtgtttttatttgatttcatctctctctccctctctttccctctctccctcattccctccctctctctctctcaacaatagggaggaagcagaaaagtgaaaaaataaaaataaaaaacaaaaattcctctacatgggctttgataggatgaattgcttttatgagcagGTTGATGGGGAAGGTTGCATCTGATAAGTGTCATAAATGGGTTTTCAAAGAGCCTTCAGAGTGTGAACCAAATGTCTCCAACTACTGGCAGAGTTCTTTT
                                                                                    | ||      |   |  |   | |  ||| |   |  | ||      || | | |  ||  |   |  | ||   | |||    | |||       ||||| ||||||| ||||| || |||||||| ||||| |||||||| ||||| || ||||| || || || || ||  ||||||||||||||||||| || || 
-----------------------------------------------------------------------------------atttcggaggcatacaatacatacatgagtcatggacgataatgtgctaatagacagacccatgggtccgtttgatttggaccg-tcgctcccgcatgcagGCTGATGGGAAAGGTGGCCTCTGATAAATGTCACAAATGGGTCTTCAAGGAACCTTCTGAATGCGAGCCCAACATCTCCAACTACTGGCAGAGCTCCTTC

upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G34980.1 (Glycine max), 3'ss of exon 3
gtgggtactgggtaggtgtttttatttgatttcatctctctctccctctctttccctctctccctcattccctccctctctctctctcaacaatagggaggaagcagaaa-agtgaaaaaataaaaataaaaaacaaaaattcctctaca-tgggctttgataggatgaatt--gcttttatgagcagGTTGATGGGGAAGGTTGCATCTGATAAGTGTCATAAATGGGTTTTCAAAGAGCCTTCAGAGTGTGAACCAAATGTCTCCAACTACTGGCAGAGTTCTTTT
||||||||||||||||||||||  | || | |  | |   |||| || |||||| |  || |  || ||| ||| |||||| |   ||      |      ||  | |    | |  |  |   |  |||   ||  |    | |||  | || ||| |||| || || | |  | ||||  || ||||||||||||||| ||||||||||||||||| || || ||||| || ||||||||  |||| |||||||||||| ||||||||||||||||||| || |||
gtgggtactgggtaggtgttttgttatgttgtggttttgttctctctttctttctcagtcactttctttctctctctctctgtgaatcttgttcaatatccaattacatgtggagggactagggagttaagttacttatgcacatctgaactgtgctctgattgggtggaattggattttgggaacagGTTGATGGGGAAAGTTGCATCTGATAAGTGCCACAAGTGGGTCTTTAAAGAGCCCACAGAATGTGAACCAAATATCTCCAACTACTGGCAGAGCTCCTTT

upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G35490.2 (Glycine max), 3'ss of exon 2
gtgggtactgggtaggtgtttttatttgatttcatctctctctccctctctttccctctctccctcattccctccctctctctctctcaacaatagggaggaagcagaaaagtgaaaaaataaaaataaaaaacaaaaattcctctacatgggctttgataggatg--aattgc-ttttatgagcagGTTGATGGGGAAGGTTGCATCTGATAAGTGTCATAAATGGGTTTTCAAAGAGCCTTCAGAGTGTGAACCAAATGTCTCCAACTACTGGCAGAGTTCTTTT
                                                                                      |||| |      |  | |  ||      |   | | ||  ||      |   |   ||  ||| | ||| |||| || ||  |||||  ||||  || ||||||||||||||| ||||||||||||||||| || || ||||| || ||||||||  |||| |||||||||||| ||||||||||||||||||| || |||
-----------------------------------------------------------------------------------tgttcaatatccaataccatgtggagggactagggagttaagttact---tatgcacatctgaaca-gtgctctgattgggtgggaattggattttgggaacagGTTGATGGGGAAAGTTGCATCTGATAAGTGCCACAAGTGGGTCTTTAAAGAGCCCACAGAATGTGAACCAAATATCTCCAACTACTGGCAGAGCTCCTTT

upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G36190.1 (Glycine max), 3'ss of exon 3
gtgggtactgggtaggtgtttttatttgatttcatctctctctccctctctttccctctctccctcattccctccctctctctctctcaacaatagggaggaagcagaaaagtgaaaaaataaaaataaaaaacaaaaattcctctaca-tgggctttgatagg-atgaattgcttttatgagcagGTTGATGGGGAAGGTTGCATCTGATAAGTGTCATAAATGGGTTTTCAAAGAGCCTTCAGAGTGTGAACCAAATGTCTCCAACTACTGGCAGAGTTCTTTT
                                                                                | | | |||     | |  ||| |      ||| | |   |  ||| | || ||||    || ||| || |   || |||| |   |   ||| ||||  || |||||||||||| |||||| ||||||||||||| || |||||||| |||||||||||| | || ||||| || ||| |||||||||||||||||||||| |||
--------------------------------------------------------------------------------tttatttcagtgccatgttggagg-----gagttacattttgcaaacacaatacaattcctc-tctgcactttactctgattgttgttgtttggttttgggaacagGTTGATGGGAAAGGTTACATCTGATAAGTGCCACAAATGGGTCTTCAAAGAGCCTACGGAATGTGAGCCTAATATCTCCAACTACTGGCAGAGTTCCTTT

upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G27400.1 (Glycine max), 3'ss of exon 3
gtgggtactgggtaggtgtttttatttgatttcatctctctctccctctctttccctctctccctcattccctccctct--------ctctctctcaacaatagggaggaagcagaaaagtgaaaaaataaaaataaaaaacaaaaattcctctaca-tgggctttgatagg-atgaattgcttttatgagcagGTTGATGGGGAAGGTTGCATCTGATAAGTGTCATAAATGGGTTTTCAAAGAGCCTTCAGAGTGTGAACCAAATGTCTCCAACTACTGGCAGAGTTCTTTT
||||||||||||||||||||| |   || | | ||   | | | ||    ||||| | |  |  |  |    | | | |        || | | |||  |  | |  ||| | ||  |      |   |  ||| | ||    ||  |  |||| || |   || |||||||  |   ||| ||||  || |||||||||||| |||||| ||||||||||||| || |||||||| || ||||||||| | || ||||| || ||| ||||||||||||||||||| || |||
gtgggtactgggtaggtgtttattcatgttgttattatttttttcccaagtttccttgtacctattttctgtttcattttaagtgttctttatttcagtaccatgttggagggagttacac---atctttcaaacacaatgacaatttctctctgcactttactctgataggtgttgtttggttttgggaacagGTTGATGGGAAAGGTTACATCTGATAAGTGCCACAAATGGGTCTTTAAAGAGCCTACGGAATGTGAGCCTAATATCTCCAACTACTGGCAGAGCTCCTTT

upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G53900.2 (Arabidopsis thaliana), 3'ss of exon 3
gtgggtactgggtaggtgtttttatttgatttcatctctctctccctctctttccctctctccctcattccctccctctctctctctcaacaatagggaggaagcagaaaagtgaaaaaataaaaataaaaaacaaaaattcctctacatgggctttgataggatgaattgcttttatgagcagGTTGATGGGGAAGGTTGCATCTGATAAGTGTCATAAATGGGTTTTCAAAGAGCCTTCAGAGTGTGAACCAAATGTCTCCAACTACTGGCAGAGTTCTTTT
|||||||||||||||||||| | || | | |   | |    |      |  ||   |        ||  ||||         || || |||                |  | | || | ||||  ||  | |||| || ||  |    |||  |||   |    |  ||    | |||  |||| |||||||| || ||||| |||||||| ||||| || |||||||||||||| || || || | |||||||||| |  | || |||||||| |||||||||
gtgggtactgggtaggtgttat-atataagtaattatggaccaaaagataattagattatataaacacaccctaa-------tcacttaactt--------------atgattaaagatataattatttacaacacaagttatt----atgatctt--gtgatgttcatgtgatatatctgcagATTGATGGGTAAAGTTGCTTCTGATAAATGTCACAAGTGGGTTTTCAAAGAACCATCTGAATCTGAACCAAATCTTGCTAATTACTGGCAAAGTTCTTTT

upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G15240.2 (Arabidopsis thaliana), 3'ss of exon 3
gtgggtactgggtaggtgtttttatttgatttcatctctctctccctctctttccctctctccctcattccctccctctctctctctcaacaatagggaggaagcagaaaagtgaaaaaataaaaataaaaaacaaaaattcctctacatgggctttgataggatgaattgcttttatgagcagGTTGATGGGGAAGGTTGCATCTGATAAGTGTCATAAATGGGTTTTCAAAGAGCCTTCAGAGTGTGAACCAAATGTCTCCAACTACTGGCAGAGTTCTTTT
||||||||| |||||||   || |||   ||| ||     | |   |||   |   | | | |  |  |||   |||   ||  | |  ||            ||| |  ||   ||||   ||| ||   | |     |||||||   |  | ||    |  ||  |||  | |    | |||||| |||||||||||||| ||||| || || ||||||||||||||||| || |   | || | |||| | |||| ||| |  |||||||| || || || 
gtgggtacttggtaggt-ccttaattactttttattatcatatatgtctgcatgaatatatgcagc--tcctgaccttattcaatattcact-----------gcaaattagcccaaaatagaaactatttatc-----ttcctctttttaagttt--gcaaaatatatt--tctggccaacagGTTAATGGGGAAGGTTGCTTCTGACAAATGCCATAAATGGGTTTTCAAGGAACAAACTGAATCTGAATCTAATGCCTCTAGTTACTGGCAAAGCTCATTC

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|161719944|gb|FC068689.1|FC068689
EST:     AGAAAAGCCTTCAGCAAAATGTCCATTCAACTTTATAATTATGGAGAAGG                         GTTGATGGGGAAGGTTGCATCTGATAAGTGTCATAAATGGGTTTTCAAAGA
genomic: AGAAAAGCCTTCAGCAAAATGTCCATTCAACTTTATAATTATGGAGAAGGgtgggtactg ... ttatgagcagGTTGATGGGGAAGGTTGCATCTGATAAGTGTCATAAATGGGTTTTCAAAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaacaaaaattcctctacatgggctttgataggatgaattgcttttatgagcagGTTGATGGGGAAGGTTGCATCTGATAAGTGTCATAAATGGGTTTTCAAAGAGCCTTCAGAGTGTGAACCAAATGTCTCCAACTACTGGCAGAGTTCTTTT
                        ctttgat  putative branch site (score: 5)
                                       ttgctttt  putative PPT
     aaaaatt  TA-rich tract