Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaattttcatccagcactggttattaatggtgtcatgaagtcatcttgtttcattgcttgatgttggtcagctttccgttttatcagGTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCCCCAGAACTCATATTTGGTGCCACTGAATATACGACTGCTATAGATATTT

Basic information

species Vitis vinifera
transcript Vv12s0035g01060.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os03g62500.1 (Oryza sativa), 3'ss of exon 7
--------------------------------------------------------------gtaaattttcatccagcactggttattaatggtgtcatgaagtcatcttgtttcattgcttgatgttggtcagctttccgttttat---cagGTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCCCCAGAACTCATATTTGGTGCCACTGAATATACGACTGCTATAGATATTT
                                                               |   ||||| | ||        | | ||    | || | || |  |   |   | |  |  ||    |     |  |||    ||   ||||| |||||||| || ||| | || || || ||||||||||||||| | || ||||| |||||||||||||| ||||||||||| ||||| || ||| | |
gtaagttctgaatttggcagaaatttaaattcacaagcatttctgttttctgaatggacacactgggttttcttgcaagg--aaatgtgaacttaggcaggtagcctacacatgatagtcttaaattgcagctttttccccgccgaatgtgcagGTCAAAGGAGAGCCAAATATCTCCTACATATGCTCAAGATATTACAGGGCACCAGAGCTCATATTTGGTGCAACTGAATATACTACTGCCATTGATTTGT

upper sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G138676_T03 (Zea mays), 3'ss of exon 7
----------------------------------------------------------------------------------------------gtaaattttcatccagcactggttattaatggtgtcatgaag-------tcatcttgtttcattg--cttgatgttggtcagctttccgttt-tat-cagGTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCCCCAGAACTCATATTTGGTGCCACTGAATATACGACTGCTATAGATATTT
                                                                                                | ||    ||  |     ||| ||  |    | ||||          |||   ||   |||    ||  ||| |||     |||  |    ||| ||||| | |||||| || ||  | || || || |||||||| ||||| || || ||||| |||||||||||||| || |||||||| |||||||| ||| | |
gtgagttatcttctaattttgaccacttttaaatgcacaagaatgctattaaatatcaacacacactacattacttggaagagtaaacaaatgcacagatcaatattaaatgtaggtgatctacctagacatggtacaaattttcaatctgaaacataaatctccatgatggcattttttttgcaaatatgcagGTCAGAGGAGAGCCAAACATCTCCTACATATGCTCAAGGTATTATCGAGCACCAGAGCTCATATTTGGTGCAACGGAATATACTACTGCTATTGATTTGT

upper sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G00400.1 (Glycine max), 3'ss of exon 6
gtaa-attttcatcca---gcactggttattaatggtgtcatgaagtcatcttgtttcattgcttgatgttggtcagct--ttccgttttatcagGTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCCCCAGAACTCATATTTGGTGCCACTGAATATACGACTGCTATAGATATTT
|||| || || ||| |   || ||| |  |||||||       |||  |   | |||  |       | |    ||  |  |||   || ||||||| ||||||||||| ||||||||||| ||||| |||||||| |||||||| || ||||| |||||||| |||||||||||||| ||||| |||||||| |
gtaagatattgatctaagtgctctgttggttaatgg-------aagctactgttttttgtcctcaagtttcatccatgtgcttctaattcatcagGTGAAAGGAGAACCTAATGTTTCTTACATCTGTTCAAGATACTACCGTGCTCCGGAACTTATATTTGGGGCCACTGAATATACAACTGCCATAGATATAT

upper sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G28730.2 (Glycine max), 3'ss of exon 7
gtaa-attttcatcca---gcactggttattaatggtgtcatgaagtcatcttgtttcattgcttgatgttggtcagct--ttccgttttatcagGTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCCCCAGAACTCATATTTGGTGCCACTGAATATACGACTGCTATAGATATTT
|||| || || ||| |   || ||| |  || ||||       |||  |   | |||  |       | |    ||  |  |||   || || |||| ||||||||||| ||||||||||| ||||| |||||||| |||||||| || ||||| |||||||| ||||| |||||||| ||||| |||||||| |
gtaagatattgatctaagtgctctgttagttgatgg-------aagctactgttttttgtcctcaagtttcatccatgtgcttctaattcattagGTGAAAGGAGAACCTAATGTTTCTTACATCTGTTCAAGATACTACCGTGCTCCGGAACTTATATTTGGGGCCACCGAATATACAACTGCCATAGATATAT

upper sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G09840.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaaattttcatccagcactggttattaatggtgtcatgaagtcatcttgtttcattgcttgatgttggtcagctttccgttttat-cagGTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCCCCAGAACTCATATTTGGTGCCACTGAATATACGACTGCTATAGATATTT
                     || | |  |  || ||     |        |||||| ||||  ||  | ||  ||  |||| | |  |||||||||||||||||||||||||||| ||||| || ||||| || ||||| ||||||||||| |||||||||| |||||| || ||||| || ||||| |
---------------------gtaagttttattgacacagcttttaacgaattcatt-cttggagtatgacatgttctcgttctctgtagGTAAAAGGAGAACCCAATGTTTCTTACATCTGTTCTAGATACTATCGTGCTCCAGAACTCATTTTTGGTGCCAGTGAATACACAACTGCAATTGATATAT

upper sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G57870.3 (Arabidopsis thaliana), 3'ss of exon 8
gtaaattttcatccagcactggttattaatggtgtcatgaagtcatcttgtttcattgcttgatgttggtcagctttccgttttatcagGTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCCCCAGAACTCATATTTGGTGCCACTGAATATACGACTGCTATAGATATTT
||||| |||    ||||  | | | ||| |||| |     |||  || |  | |||   | |||  ||    |  |   | |  | ||||| ||||||||||||||| ||||||| || || |||||||| || ||||||||||| ||||| ||||| ||||| || || || ||||| ||||| || |
gtaaagttta--tcagctatagctcttagtggttt-----agttttcctagtccatgcttagattatgac--gtgtcatggtcca-cagGTGAAAGGAGAACCCAATATTTCTTACATTTGTTCAAGATACTATCGTGCCCCAGAGCTCATTTTTGGAGCCACCGAGTACACAACTGCAATAGACATAT

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|46917752|gb|CN547081.1|CN547081
EST:     CACACACGCATCAGCTGAAACTTTGTGATTTTGGGAGTGCGAAAGTTTTG                         GTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCC
genomic: CACACACGCATCAGCTGAAACTTTGTGATTTTGGGAGTGCGAAAGTTTTGgtaaattttc ... gttttatcagGTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCC
EST: gi|30126156|gb|CB911495.1|CB911495
EST:     GAAACTTTGTGATTTTGGGAGTGCAAAAGTTTTG                         GTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCC
genomic: GAAACTTTGTGATTTTGGGAGTGCGAAAGTTTTGgtaaattttc ... gttttatcagGTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCC
EST: gi|110726124|gb|EE101641.1|EE101641
EST:     CACACACGCATCAGCTGAAACTTTGTGATTTTGGGAGTGCGAAAGTTTTG                         GTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCC
genomic: CACACACGCATCAGCTGAAACTTTGTGATTTTGGGAGTGCGAAAGTTTTGgtaaattttc ... gttttatcagGTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCC
EST: gi|161715603|gb|FC067769.1|FC067769
EST:     CACACACGCATCAGCTGAAACTTTGTGATTTTGGGAGTGCGAAAGTTTTG                         GTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCC
genomic: CACACACGCATCAGCTGAAACTTTGTGATTTTGGGAGTGCGAAAGTTTTGgtaaattttc ... gttttatcagGTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCC
EST: gi|156736132|gb|EV240253.1|EV240253
EST:     CACACACGCATCAGCTGAAACTTTGTGATTTTGGGAGTGCGAAAGTTTTG                         GTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCC
genomic: CACACACGCATCAGCTGAAACTTTGTGATTTTGGGAGTGCGAAAGTTTTGgtaaattttc ... gttttatcagGTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCC
EST: gi|30130728|gb|CB916067.1|CB916067
EST:     GAAACTTTGTGATTTTGGGAGTGCAAAAGTTTTG                         GTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCC
genomic: GAAACTTTGTGATTTTGGGAGTGCGAAAGTTTTGgtaaattttc ... gttttatcagGTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatgaagtcatcttgtttcattgcttgatgttggtcagctttccgttttatcagGTAAAAGGAGAACCCAATGTTTCTTATATCTGCTCAAGATATTACCGTGCCCCAGAACTCATATTTGGTGCCACTGAATATACGACTGCTATAGATATTT
                       gcttgat  putative branch site (score: 5)
                                       ctttccgttttatc  putative PPT
                                              ttttatca  TA-rich tract