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

GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgccatccttcctcaagtctttcacctgtcgtgtcatgtcctctgcgtggtgtgaaccatagtattgtttcaccatgtgaaacaatgtgcatgagtg...

Basic information

species Vitis vinifera
transcript Vv08s0007g07420.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: LOC_Os07g07560.1 (Oryza sativa), 5'ss of exon 8
GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgccatc-----cttcctcaagtctttcac-ctgtcgtgtcatgtcctctgcgtgg-----tgtgaaccatagtattgtttcaccatgtgaaacaatgtgcatgagtg--------------------------------------------
|||||||||||| |||||||| |||||||||||| | ||||| || |||||| |  |||| ||||||||||| | |||||||||||||||||| |||| || ||       ||  |  | |    |||  | || || |||   ||  |  |       | ||    |||   |||| |  |||  ||           || |||                                             
GTTTGTGCATGGTGATGTGAAACCAGAGAACTTTCTGCTTGGCCAGCCTGGATCACCTGACGAGAAGAAGCTTTATCTTATTGATCTTGGTTTAGgtaagctattaatagtttgtttcatttcaccacattttcatggcatacactaggactaaaatcttatgctttatacacttgtatttccaattgttgttgcccctattagttttcaagtattttttgtatgatatggcattgtccaaattgtacag

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: LOC_Os03g57940.4 (Oryza sativa), 5'ss of exon 7
GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgccatccttcctcaagtc-tttcacctgtcgtgtcatgtcctctgcgtggtgtgaaccatagtattgt-ttcaccatgtgaaacaatgtgcatgagtg---------------------------------------------------------
|||||| ||||| ||||| || |||||||| ||||| |||||||| |||||  | | ||||||||||||||| || || |||||||||||||| |||| ||  |  |||   ||||  | ||| |||| || | | ||  ||    | ||    |   |  ||| |  ||  |  |     |   ||| | ||| |                                                          
GTTTGTACATGGTGATGTCAAACCAGAGAATTTTTTGCTTGGTCATCCTGGGTCAGTTGATGAGAAGAAGCTTTTCCTGATTGATCTTGGTTTAGgtaggcttttgttca--aagtagtctcatctgt-gtatgaagtattcaatttagttctcaatgtgctatggcatttgctcttatgcattttgtacttgaatcccaaggaattgttgccctgttgatttatttttatttcgtgatgttgaaatcatgcag

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: LOC_Os01g56580.2 (Oryza sativa), 5'ss of exon 8
GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgccatcctt-cctcaagtctttcacctgtcgtgtcatgtcctctgcgtggtgtgaaccatagtattgtttcaccatgtgaaacaatgtgcatgagtg---------------------------------------------------------------------------------
||| || ||||||||||| || ||||| || ||| ||||||| ||||||||| |  ||||||||||||| || ||| | ||||||||||| || ||||||| ||     ||| | ||  || |    | ||  ||     |  ||         | |  | ||   ||| ||  |    ||  |       |  ||                                                                                 
GTTCGTTCATGGAGATGTTAAACCAGAAAATTTTCTACTTGGCCAACCTGGATCACCTGATGAGAAGAAACTTTTTTTGATTGATCTTGGCTTAGgtatgcaatggaaaccttatgtgattgatac-tggttgcaaaaattgagcacataacccatctcaataagatttaacattccctaatcagaattgcggatgttcttttgtaatgctgtttgtacctaatatcattgtaaaatgtgagttcacaagtgctcatgctaccatttacaatttcag

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G110085_T01 (Zea mays), 5'ss of exon 3
-----GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgc---------catccttcctcaagtctttcacctgtcgtgtcatgtcctctgcgtgg------tgtgaac---catagtattgtttcaccatgtgaaacaatgtgcatgagtg--------------------------------
     |||||||||||| |||||||| |||||||| ||| | |||||||| |||||| |  |||| || |||||||| |  ||||| ||||||||||| |||||||           |  ||   ||||| |||    |  | || ||  |    | | | |        |  |    | |||| || |||  |||  |    |        |  ||                                 
GCCAGGTTTGTGCATGGTGATGTGAAACCAGAGAATTTTCTGCTTGGTCAGCCTGGATCGCCTGAAGATAAGAAGCTTTACCTTATAGATCTTGGTTTAGgtatgcatttgtcaatttttttatccaagtgtttactattccatgccacctttgtttctttgaaacttcatagattttcttagtgttattttcccaattatctccccccttctttgttgttgttgatatgtggcacccaaaattgtacaa

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G037923_T02 (Zea mays), 5'ss of exon 8
GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgccatc-----cttcctcaagtctttcacctgtcgtgtcatgtcctctgcgtgg-tgtgaaccatagtattgtttcaccatgtgaaacaatgtgcatgagtg----------------------------------------------
|||||||||||| |||||||| |||||||| ||| | |||||||| |||||| |  |||| || |||||||| |  ||||| ||||||||||| |||||||  |       ||  |  |  |       |    |  |||| |  ||  ||   | |||| | |  ||   ||||    ||| |           |   |                                               
GTTTGTGCATGGTGATGTGAAACCAGAGAATTTTCTGCTTGGTCAGCCTGGATCGCCTGAAGATAAGAAGCTTTACCTTATAGATCTTGGTTTAGgtatgcatttgtcaattttttttatccaagtgtttactattccatgccacctttgtttctttgaaacttcatagattttcttagtgttatttttcccaattatcttcccccttctttgttgttgttgatatgtggcacccaaaattgtacag

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G082099_T01 (Zea mays), 5'ss of exon 2
GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgc---------catccttcctcaagtctttcacctgtcgtgtcatgtcctctgcgtgg------tgtgaac---catagtattgtttcaccatgtgaaacaatgtgcatgagtg-------------------------------
|||||||||||| |||||||| |||||||| ||| | |||||||| |||||| |  |||| || |||||||| |  ||||  ||||||||||| |||||||           |  ||   ||||| |||    |  | || ||  |    | | | |        |  |    | |||| || |||  |||  |    |    | | |   ||                               
GTTTGTGCATGGTGATGTGAAACCAGAGAATTTTCTGCTTGGTCAGCCTGGATCGCCTGAAGATAAGAAGCTTTACCTTACAGATCTTGGTTTAGgtatgcatttgtcaatttttttatccaagtgtttactattccatgccacctttgtttctttgaaacttcatagattttcttagtgttattttcccaattatctcccccttctttgttgttgttgatatgtggcacccaaaattgtacaa

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G164265_T03 (Zea mays), 5'ss of exon 8
GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgccatccttcctcaagtctttcacctgtcgtgtcatgtcctctg-cgtggtgtgaaccatagtattgttt-caccatgtgaa-acaatgtgcatgagtg----------------------------------------------------
|||||||||||| |||||||| |||||||| ||| | |||||||| |||||| |  |||| || ||||| || |  ||||| ||||| ||||| |||||||  |  |     |  | ||     |||  | |  | | |  |  |   ||     |  |   | | |||  |   | | |   | || | |     ||                                                    
GTTTGTGCATGGTGATGTGAAACCAGAGAATTTTCTGCTTGGTCAGCCTGGATCGCCTGACGATAAGAAACTTTACCTTATAGATCTCGGTTTAGgtatgcatttgtcaaatagtttttatctatgtattttactattccatatcactgtagtttctttgaaactatttatattttcttagtgctattttcccacttgcctcccccctttgttgttgttgttgttgatatgtggtacccaaattgtacag

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G458035_T01 (Zea mays), 5'ss of exon 6
GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgc---------catccttcctcaagtctttcacctgtcgtgtcatgtcctctgcgtgg------tgtgaac---catagtattgtttcaccatgtgaaacaatgtgcatgagtg-------------------------------
|||||||||||| |||||||| |||||||| ||| | |||||||| |||||| |  ||||  | |||||||| |  ||||  ||||||||||| |||||||           |  ||   ||||| |||    |  | || ||  |    | | | |        |  |    | |||| || |||  |||  |    |    | | |   ||                               
GTTTGTGCATGGTGATGTGAAACCAGAGAATTTTCTGCTTGGTCAGCCTGGATCGCCTGAATATAAGAAGCTTTACCTTACAGATCTTGGTTTAGgtatgcatttgtcaatttttttatccaagtgtttactattccatgccacctttgtttctttgaaacttcatagattttcttagtgttattttcccaattatctcccccttctttgttgttgttgatatgtggcacccaaaattgtacaa

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GLYMA16G04580.1 (Glycine max), 5'ss of exon 8
GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgccatccttcc---tcaagtctttcacctgtcgtgtcatgtcctctgcgtggt---gtgaaccatagtattgtttcaccatgtgaaa--caatgtg-catgagtg--------
||||||||||||||||||||| || || |||||||| ||||||||||||||| | ||||| || |||||| ||| |||||||||||||||| ||||||||   ||| | |    ||  | ||     ||| | ||       ||||| |       ||   |||  |||| |     | | | ||   | || || ||||  |         
GTTTGTGCATGGAGATGTGAAACCTGAAAACTTTTTGCTTGGTCAACCTGGATCAGCTGAAGATAAGAAGTTATATCTTATTGATCTTGGTCTGGgtatgttgtccattcaaaccagttgttgtttatgttgcgtttaactttctgcctcaccacttggtacatgatattttcatgacttattaatgtccatatggcatgcattgtcttcag

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: AT3G03940.1 (Arabidopsis thaliana), 5'ss of exon 8
GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgccatccttcctcaagtctttcacctgtcgtgtcatgtcctctgcgtggtgtgaaccatagtattgtttcaccatgtgaaacaatgtgcatgagtg
||||||||||||||||||||| ||||| |||||||| |||||||| |||||||| || || |||||||| ||||  ||||| ||||||||| | |||  |   |   |  | ||   || ||   ||  | |  | ||     | |    |  | |||     | |||||                         
GTTTGTGCATGGAGATGTGAAACCAGAAAACTTTTTGCTTGGTCAGCCTGGAACAGCAGACGAGAAGAAACTATACCTTATCGATCTTGGTCTAGgtgag---tatctgttaaatatttacaatcgttttatttt-tcaaaatcttaacatatatcat----ctatttcag------------------------

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: AT5G18190.1 (Arabidopsis thaliana), 5'ss of exon 8
GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgc-catccttcctcaagtctttcacctgtcgtgtcatg---tcctctgcgtggtgtgaaccatagtattgtttcaccatgt--gaaacaatgtgcatg-agtg--------------
|||||| || |||||||||||||| || ||||||||||| |||||||| ||||| || |||||||| || || |  ||||| ||||||||| |||||  |   || |||    |   ||||   || ||   |  ||   |  | |  | | | || | | | ||| |  |     ||||  | |  ||||| ||   | |               
GTTTGTCCACGGAGATGTGAAGCCGGAAAACTTTTTACTCGGTCAACCAGGAACAGCAGATGAGAAAAAACTCTACCTTATCGATCTTGGTCTGGgtgagtgtattcttatgaagaactttattctctctgatgctgcaatattttatgagatatgtaacttggtacttctctttgatgttggcattaatgttcacataatcttctgttgtttcag

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: EFJ31718 (Selaginella moellendorffii), 5'ss of exon 5
-----GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgccatccttcctcaagtctttcacctgtcgtgtcatgtcctctgcgtggtgtgaaccatagtattgtttcaccatgtgaaacaatgtgcatgagtg
      | ||| || ||||||||||||||||||||||| || || ||||||||||| |||| ||| ||||||||| | || ||| | ||||| || || |||| ||  | | | ||     |     | |||  | ||||||      |||  |||      | ||  || | ||                         
CGGGGCTATGTTCACGGAGATGTGAAGCCAGAGAACTTCTTGCTAGGTCAACCTGGTACTGTTGACGAGAAGAAGTTGTTCCTTGTGGATCTAGGGTTAGgtaggcacttccttctagttaccactgcatgt--tttcatgtta---acgttttgt------tcgttctgctccag------------------------

upper sequence: Vv08s0007g07420.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: EFJ38433 (Selaginella moellendorffii), 5'ss of exon 5
-----GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgccatccttcctcaagtctttcacctgtcgtgtcatgtcctctgcgtggtgtgaaccatagtattgtttcaccatgtgaaacaatgtgcatgagtg
      | ||| || |||||||||||||||||||| || || || ||||||||||| |||| ||| ||||||||| | || ||| | ||||| || || |||| || |     | ||||||  |     | || ||| |     | ||   | | ||  |||                                      
CGGGGCTATGTTCACGGAGATGTGAAGCCAGAGAATTTCTTGCTAGGTCAACCTGGTACTGTTGACGAGAAGAAGTTGTTCCTTGTGGATCTAGGGTTAGgtaggc-acttcacttcaagttatgt---tttcatgtta-acgttttgttcgttctgctccag-------------------------------------

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|71861339|gb|DT010394.1|DT010394
EST:     ACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGG                         CCTCTAAATGGAAAGACATCACATCTGGTCAACATGTTGATTATGATCAGA
genomic: ACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgccatc ... tttgtttcagCCTCTAAATGGAAAGACACCACATCTGGTCAACATGTTGATTATGATCAGA




















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTTGTGCATGGAGATGTGAAGCCAGAGAACTTTTTACTTGGTCAACCTGGAACTGCTGATGAGAAGAAGCTATTTCTTATTGATCTTGGTTTGGgtatgccatccttcctcaagtctttcacctgtcgtgtcatgtcctctgcgtggtgtgaaccatagtattgtttcaccatgtgaaacaatgtgcatgagtg

- - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttcctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaacaa