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'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTATTGCAATTGGAGGAGATGTGTTCCCAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagtgtttgcagtcattccccctgaggcacacctgccaaaaagttgcattttgcatgtttatttttttttccctccccacttggaaagctatta...

Basic information

species Vitis vinifera
transcript Vv05s0077g00950.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0077g00950.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G002416_T01 (Zea mays), 5'ss of exon 3
GTATTGCAATTGGAGGAGATGTGTTCCCAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagtgtttgcagtcattccccctgaggcacacctgccaaaa--agttgcattttgcatgtttatttttttttccctccccacttggaaagctatta
| |||||||||||||| ||||| ||||| ||||| ||||| || || ||  || |||| ||||| ||||| |||||||| |   | |     | || |           | | |   |  ||     || |  || ||||| |  || || |||      |     |||  | || |  
GAATTGCAATTGGAGGGGATGTTTTCCCTGGATCAACTCTGTCAGACCACATTCTGCGTTTTAATAACATACCACAGgtttggcatttacaccggttaggttgatatgtgaaaaatagttaacttttgtagtgttatgcatatacatattctttattggtctt-tatggtgaactgtc-

upper sequence: Vv05s0077g00950.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G179170_T01 (Zea mays), 5'ss of exon 2
GTATTGCAATTGGAGGAGATGTGTTCCCAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagtgtttgcagtcatt---ccccctgaggcacacctgccaaaaagttgcattttgcatgtttatttttttttccctccccacttggaaagctatta
| |||||||||||||| ||||| ||||| ||||| ||||| || || ||  || |||| ||||| ||||| |||||||| |  |    |||||| |  ||    ||      | | |   |  |     | |  || |||||||  || || ||       |     |||  | || |  
GAATTGCAATTGGAGGGGATGTTTTCCCTGGATCAACTCTGTCAGACCACATTCTGCGTTTTAATAACATACCACAGgtttgattacatttgcaattgttagatccatatgtgaaaagtagttagtttctggtgttatgcatgtgcatgttcttcatttatctt-tatggtgaactgt--

upper sequence: Vv05s0077g00950.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA17G03700.1 (Glycine max), 5'ss of exon 7
GTATTGCAATTGGAGGAGATGTGTTCCCAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgta---ttctagtgtt--tgcagtcattccccctgagg--cacacctgccaaaaagttgc-----atttt--gcatgtttatttttttttccctccccacttggaaagctatta--------
| ||||| ||||| |||||||| |||||||| || || |||||||| ||||||||||||||||||||||| |||||||||   ||  | | ||      |  | |     | |      || ||    || |  |||     ||||   | ||||   ||| || |       |   ||| |     ||||        
GCATTGCCATTGGTGGAGATGTTTTCCCAGGTTCCACACTTTCTGACCATGTTTTGCGGTTTAACAACATACCACAGgtaaaatttcacttttatcttgggtactgtatataatatctgcaactcattaagaactgcaaatgatttggagtatgtccttttcttgtgaatgatcagtttgtatttacattaaacctcag

upper sequence: Vv05s0077g00950.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA07G36840.1 (Glycine max), 5'ss of exon 9
GTATTGCAATTGGAGGAGATGTGTTCCCAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagtgtttgcagtcattccccctgaggcacacctgccaaaaagttgcattttgcatgtttattttt--ttttccctccccacttggaaagctatta-
| ||||| ||||| |||||||| |||||||| || || |||||||| ||||||||||||||||||||||| |||||||||   ||    ||  |       | | | | | ||   |||||| || ||| | | |     ||| || |   |  ||  ||   | |||    |  |  | 
GAATTGCCATTGGTGGAGATGTTTTCCCAGGCTCCACACTTTCTGACCATGTTTTGCGGTTTAACAACATACCACAGgtagaatatcacttttatctgcaactcattaagaac---tgccaacaatttggagtatatcattttcttgtgaatgatcattctgtatttgtgtggtcaagag

upper sequence: Vv05s0077g00950.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA15G15020.1 (Glycine max), 5'ss of exon 8
GTATTGCAATTGGAGGAGATGTGTTCCCAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgta--ttctagtgtttgcagtcattccccctgaggcacacctgccaaaaagttgcattttg--catgtttatttttttt--tccctccccacttggaaagctatta--------
| ||||| |||||||||||||| ||||| || || || |||||||| |||||||| |||||||||||||| |||||||||  || | |  ||     | |    |        | |  ||| |   ||| | || | |  |||||   ||||||||  |   |   |   | |      ||||        
GCATTGCTATTGGAGGAGATGTTTTCCCTGGTTCCACACTTTCTGACCATGTTTTACGGTTTAACAACATGCCACAGgtaaatttttgccttcttcttgaggagctacctaaaatatttgc-atcgagtagaatctagagcatgtcagttttttttggttatttatcgtcttggtttacattaaacctcag

upper sequence: Vv05s0077g00950.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA09G04000.1 (Glycine max), 5'ss of exon 8
GTATTGCAATTGGAGGAGATGTGTTCCCAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagtgtttgca----gtcattccccctgaggcacacctgccaaa-aagttgcattttgcatgtttatttttttttccctccccacttggaaagctatta--------
| ||||| |||||||||||||| ||||| || || || |||||||| |||||||| |||||||||||||| |||||||||   |  || || |     |     |  ||| |           |||  |   |  |      ||   | |||||  ||   | |   ||||||   | ||||        
GCATTGCTATTGGAGGAGATGTTTTCCCTGGTTCCACACTTTCTGACCATGTTTTACGGTTTAACAACATGCCACAGgtaaatttttgctttcttcttggggagctacctaaaatgtttgcatcaagtagaatctagagcatataagtgtttttggttatttactgtcttggattac-attaaacttcag

upper sequence: Vv05s0077g00950.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA15G15010.1 (Glycine max), 5'ss of exon 7
GTATTGCAATTGGAGGAGATGTGTTCCCAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagtgtttgcagtcattccccctgaggcacacctgccaaaaagttgcattttgcat--gtttatttttttttccctccccacttggaaagctatta-----
| ||||  |||||||||||||  |||||||| || || |||||||| |||||||| |||||||||||||| ||||||||||  |  || || |      | |   ||  ||  ||||  || |    | || | | ||   |  |||   | |||          | |  |  || |       
GCATTGACATTGGAGGAGATGCTTTCCCAGGCTCCACACTTTCTGACCATGTTTTACGGTTTAACAACATACCACAGgtatatttttgctttc------ttcttgtggagc-tacctaacatatgcatccaatatacaacagcatatcagtatttaaaaaattgttagtgacactctctctaac

upper sequence: Vv05s0077g00950.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: AT3G06650.1 (Arabidopsis thaliana), 5'ss of exon 8
GTATTGCAATTGGAGGAGATGTGTTCCCAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagtgtttgcagtcattccccctgaggcacacctgccaaaaagttgcattttgcatgtttatttttttttccctccccacttg-gaaagctatta---------------------------------------------------------------------------------------
| ||||| ||||| || ||||||||||| || || ||| | ||||| ||| |  |||||||||||||||||||||||||||  |  | ||  |  | |       ||  || |||  |    | |    |||   || | |  ||||||| | |  |     | || |||||||||                                                                                         
GCATTGCTATTGGTGGGGATGTGTTCCCGGGCTCAACTTTATCTGACCATATCCTGCGGTTTAACAACATCCCACAGgtatattcttcttgacttttaaaattt-tgttgctcactgg---gatatcctcatgcggcctatccattttttctactgtttaaccatgagaaagctatactgtacttagaggcatctgaccttccctctcttgttcagctagcctctttaactccaaaattttgttttcattttttcaatattgcag

upper sequence: Vv05s0077g00950.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: AT5G49460.1 (Arabidopsis thaliana), 5'ss of exon 8
GTATTGCAATTGGAGGAGATGTGTTCCCAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtat----------tctagtgtttgcagtcattccccctgaggcacacct---gccaaaaagttgc-attttgcatgtttatttttttttccctcccc--acttggaaagctatta-------------------
| ||||| ||||| ||||| |||||||||||||| ||| | ||||| ||  |  | |||||||||||||||||||||||||          || | |||||    |  | | | |||   | | |||   |      ||||   || || ||  || |  || | ||| |||     | |    | ||  | |                   
GCATTGCTATTGGTGGAGACGTGTTCCCAGGATCGACTTTATCTGACCACATCCTTCGGTTTAACAACATCCCACAGgtatataccaatcttcaattgtttaacctgctgctcgctggaacgcgcctctggtggtggagttttgatgttacaaattgaacttatattcactctttcaattcattatgccttaattcaagagctatgttgcag

upper sequence: Vv05s0077g00950.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: PP1S46_63V6.4 (Physcomitrella patens), 5'ss of exon 7
-----------------------GTATTGCAATTGGAGGAGATGTGTTCCCAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagtgtttgcagtcattccccctgaggcacacctgccaaaaagttgcattttgcatgtt-tatttttttttccctccccacttggaaagctatta--
                       | ||||| ||||| || ||||| |  || || || || ||||| |||||||||||||| || |||||||| |||||||||| |  || | ||    |        |||  | | | |||   |     |      |  | ||  ||  |   |    |  | | || |||   | ||   
TGTTACTGACGGCCTCTACGAAGGCATTGCCATTGGTGGTGATGTCTATCCTGGGTCAACGCTTTCGGATCATGTTTTGCGCTTCAACAACATTCCACAGgtatcc--gtttctgactgcgaattgtatgat-cgctcatgcaggatccaggagccaagtttattacatcgtgaatgtaatttctattttgaatattctttat

upper sequence: Vv05s0077g00950.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: PP1S35_384V6.2 (Physcomitrella patens), 5'ss of exon 7
-----------------------GTATTGCAATTGGAGGAGATGTGTTCCCAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtat--tctagtgtttgcagt-cattccccctgaggcacacctgccaaaaagttgcattttgcatgtttatttttttttccctccccacttggaaagctatta-----------
                       | || || ||||| |||||||| | ||| || || || ||||| |||||||| ||||||||||||||||| |||||||||   |||  | |||  |||  | | |  ||||  ||  | ||    |||     | | | ||  |  |||    |||  |     |      | | ||||            
TGTTACAGATGGTCTATATGAAGGCATCGCCATTGGTGGAGATGTCTACCCTGGGTCCACGCTTTCAGATCATGTGTTGCGGTTTAACAACATTCCACAGgtagaatctgcttttttaagtgtagttctgctgaatcatgcatgagtgaaa----tactctccacatcaattcaactttggcatgtaatgcaatatgatattttgggtgtgcag

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|110699038|gb|EE077224.1|EE077224
EST:     CAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAG                         GTTAAAATGGTGGTTGTACTTGGGGAACTTGGTGGGCGAGATGAATACTCC
genomic: CAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagt ... tttgactcagGTTAAAATGGTGGTTGTACTTGGGGAACTTGGTGGGCGAGATGAATACTCC
EST: gi|352776496|gb|FQ474798.1|FQ474798
EST:     CAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACCTCCCAAAG                         GTTAAAATGGTGGTTGTACTTGAGGAACTTGGGTGGGCGAGATGAATACTC
genomic: CAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagt ... tttgactcagGTTAAAATGGTGGTTGTACTTGGGGAACTTGG-TGGGCGAGATGAATACTC
EST: gi|30303560|gb|CB980354.1|CB980354
EST:     CAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAG                         GTTAAAATGGTGGTTGTACTTGGGGAACTTGGTGGGCGAGATGAATACTCC
genomic: CAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagt ... tttgactcagGTTAAAATGGTGGTTGTACTTGGGGAACTTGGTGGGCGAGATGAATACTCC
EST: gi|37184781|gb|CF604135.1|CF604135
EST:     CAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAG                         GTTAAAATGGTGGTTGTACTTGGGGAACTTGGTGGGCGAGATGAATACTCC
genomic: CAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagt ... tttgactcagGTTAAAATGGTGGTTGTACTTGGGGAACTTGGTGGGCGAGATGAATACTCC
EST: gi|37189577|gb|CF608926.1|CF608926
EST:     CAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAG                         GTTAAAATGGTGGTTGTACTTGGGGAACTTGGTGGGCGAGATGAATACTCC
genomic: CAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagt ... tttgactcagGTTAAAATGGTGGTTGTACTTGGGGAACTTGGTGGGCGAGATGAATACTCC
EST: gi|110712318|gb|EE089799.1|EE089799
EST:     CAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAG                         GTTAAAATGGTGGTTGTACTTGGGGAACTTGGTGGGCGAGATGAATACTCC
genomic: CAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagt ... tttgactcagGTTAAAATGGTGGTTGTACTTGGGGAACTTGGTGGGCGAGATGAATACTCC
EST: gi|30133560|gb|CB918899.1|CB918899
EST:     GTTTTGCGGTTTAACAACATCCCACAG                         GTTAAAATGGTGGTTGTACTTGGGGAACTTGGTGGGCGAGATGAATACTCC
genomic: GTTTTGCGGTTTAACAACATCCCACAGgtattctagt ... tttgactcagGTTAAAATGGTGGTTGTACTTGGGGAACTTGGTGGGCGAGATGAATACTCC
EST: gi|110699517|gb|EE076586.1|EE076586
EST:     TTGCGGTTTAACAACATCCCACAG                         GTTAAAATGGTGGTTGTACTTGGGGAACTTGGTGGGCGAGATGAATACTCC
genomic: TTGCGGTTTAACAACATCCCACAGgtattctagt ... tttgactcagGTTAAAATGGTGGTTGTACTTGGGGAACTTGGTGGGCGAGATGAATACTCC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTATTGCAATTGGAGGAGATGTGTTCCCAGGATCTACTCTTTCTGATCATGTTTTGCGGTTTAACAACATCCCACAGgtattctagtgtttgcagtcattccccctgaggcacacctgccaaaaagttgcattttgcatgtttatttttttttccctccccacttggaaagctatta

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tccccct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccctccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttggaaa