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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgtctccagcctttctgtcaaaataaaatccaattcgttgtgtccttaaactttgctagaaatgattataaatgtgtcgcctattgtctgtgaattcttcatgataaactctcttatgaacaaaaaggataatgacatttaactctgaatataactttttttatttcatgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGATGCCCTACATACCATGCATGATGGGAAATTTTTACACCTTCCTGTCATTG

Basic information

species Vitis vinifera
transcript Vv17s0000g01200.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G171622_T01 (Zea mays), 3'ss of exon 7
gtatttgtctccagcctttctgtcaaaataaaatccaattcgttgtgtccttaaactttgctagaaatgattataaatgtgtcgcctattgtctgtgaattcttcatgataaactctcttatgaacaaaaaggataatgacatttaactctgaatataactttttttatttcatgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGATGCCCTACATACCATGCATGATGGGAAATTTTTACACCTTCCTGTCATTG
                                                                          || | | |   | |||  || || ||   | |||  |     | | || | |   |   |      ||  |||||   |  ||   |    ||  ||      |||||||||||||  | ||| |||||||| ||| | || || || ||| ||||||| || || || |||||||||||||||||||||||  | |||||| | |
------------------------------------------------------------------------gcaagtctctttacaattacctttgtatcgct-atgcaatcacatttaattatctgtacctact-catcaactaactgccatcatgtttgaaattcctttcca--cagGTCATGACTCAGAGTCCTGAATGTGCCACAGTGGACACCCCAATTCTTGATGCTCTTCACACAATGCATGATGGGAAATTTTTACATTTGCCTGTCCTGG

upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G37370.3 (Glycine max), 3'ss of exon 8
gta-tttgtctccagcctttc--tgtcaaaataaaatc--caattcgttgtgtccttaaactttgctagaaatgattataaatgtgtcgcctattgtctgtgaattcttcatgataaactctcttatgaacaaaaaggataat-----gacatttaactctgaatataactttt-tttatttcatgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGATGCCCTACATACCATGCATGATGGGAAATTTTTACACCTTCCTGTCATTG
||| ||||| |  |   || |  |||  | |   ||        |  |  | |||||   | ||  | ||     | | |  | | ||   || | | |  |  || |  ||  |  |   | |||      |||  |  |||     |   | |  || |   | |  || || |||  |  || | ||||||||||||||||||||||||||||  | |||||||||||||||||||||||| || || || |||||||||||||||||||| || ||||||||  |||
gtactttgtttttatttttacattgttgagacggaactgtttgcttttgttttccttttccattctttgattctgtaacatctatatctagtaatttttaagg-ttgtatattttctatcatgttacatgagaaattggcaattctgagggttcttccttttcttgttgctcttatttgataaatatgcagGTCATGACTCCAAATCCAGAATGTGTCATAATTGATACACCCATTGTTGATGCACTTCACACTATGCATGATGGGAAATTTTTGCATCTTCCTGTGGTTG

upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA05G38140.1 (Glycine max), 3'ss of exon 7
gtatttgtctccagcctttctgtcaaaataaaatccaattcgttgtgtccttaaactttgctagaaatgattataaatgtgtcgcctattgtctgtgaattcttcatgataaactctcttatgaacaaaaaggataatgacatttaactctgaatataactttttttatttcatgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGATGCCCTACATACCATGCATGATGGGAAATTTTTACACCTTCCTGTCATTG
                                            ||     || |    |   ||  | |  |  |   |||    | | |   |  || |  || |  | | |  || |   |  |       || |  |  |||  | |||    || |      | | |   | |||||||||||||||||||||||||||| ||||||||||||||| || || ||||| || || || |||||||| || |||||||| || ||||||||  || 
--------------------------------------------gtacatctagatccagt--gacgttaggaccaccatgt----tttagaaggaaaagtagtctttctgagcgttcgttcaattatcgtttgtagtccctctta--tttgacgtaaagtcaacacaatcc---tacagGTCATGACTCCAAATCCAGAATGTGGAACAATTGATACACCAATAGTCGATGCACTTCACACTATGCATGACGGAAAATTTTTGCATCTTCCTGTGGTTA

upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G17720.1 (Glycine max), 3'ss of exon 6
gtatttgtctccagcctttctgtcaaaataaaatccaattcgttgtgtccttaaactttgctagaaatgattataaatgtgtcgcctattgtctgtgaattcttcatgataaactctcttatgaacaaaaaggataat----gacatttaactctgaatataactttt-tttatttcatgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGATGCCCTACATACCATGCATGATGGGAAATTTTTACACCTTCCTGTCATTG
                                      || ||| |    || |  ||    ||||   | | |  |  | |    | || | |  |  || |   | ||  |   | |||     ||||  |  |||        | |  || |   | |  || || |||  |  || | |||||||||||||| ||| ||| ||| | |  |||||||||||||||||||||||| || || || ||||||||||| |||||||| || |||||||   |||
----------------------------------gtgctttgtttttatttttacattgttgagaagaaactgtttacttatg--tttttatttaagg-ttgtatgt-atctatcgtgttacctgaaaaattggcaattctgagtttcttccttttcttgttgctcttatttgataaatatgcagGTCATGACTCCCAATTCAGTATGCGTAGTAATTGATACACCCATTGTTGATGCACTTCACACTATGCATGATGGAAAATTTTTGCATCTTCCTGCGGTTG

upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G01470.1 (Glycine max), 3'ss of exon 6
gtatttgtctccagcctttctgtcaaaataaaatccaattcgttgtgtccttaaactttgctagaaatgattataaatgtgtcgcctattgtctgtgaattcttcatgataaactctcttatgaacaaaaaggataatgacatttaactctgaatataactttttttatttcatgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGATGCCCTACATACCATGCATGATGGGAAATTTTTACACCTTCCTGTCATTG
                                                            |||||  || | ||    |   |   | ||    |  ||   |   |     |   |   || ||  |        |   | | | | |    |||||      |  | |  || | |||||||||||||||||||||||||||| ||||||||||||||| ||  | ||||| || || || |||||||| || || ||||| || |||| |||  || 
------------------------------------------------------gtacatctagatctggtgatgttaggaccatgttttagacggaaaagttgtctctccgagcgttcgatcaattatcgtttctactccctcttatttgacatatag-----tcaactctatctacagGTCATGACTCCAAATCCAGAATGTGGAACAATTGATACACCAATAATCGATGCACTTCACACTATGCATGACGGAAATTTTTTGCATCTTCTTGTGGTTA

upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S11_325V6.1 (Physcomitrella patens), 3'ss of exon 7
gtatttgtctccagcctttctgtcaaaataaaatccaat-tcgttgtgtccttaaactttgctagaaatgattataaatgtgtcgcctattgtctgtgaattcttcatgataaactctcttatgaacaaaaaggataat-gacatttaactctg--aatataactttttttattt-catgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGATGCCCTACATACCATGCATGATGGGAAATTTTTACACCTTCCTGTCATTG
             |  |     |  | |  |  || |   | |||| | |   || |  |||         |||   |  |||     |  ||   ||   ||||         || | ||||||| ||| ||   | | || ||||||   |   |  ||   || | | |||  | ||   |||| ||||| || ||||| || |||||     | || ||| |  | || |||||||||||| | ||||||||| |||||||| | || ||||||||||  |
-------------gtgtgatcttttagacgatttctatcatggttgagactccaaccactgcctagtgcccttaatgagatgttcgagacagttcttgttgtctttg-------ctattttatgaagaaagagctcagttgaaatttaaacatactatcatgtattgtctgattggcgtgggtagGTGATGACGCCTAATCCTGAGTGTGCTGGTTTGGACACAACTCTGGTGGATGCCCTACATGCAATGCATGATAGGAAATTTCTCCATCTTCCTGTCACAG

upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ25849 (Selaginella moellendorffii), 3'ss of exon 7
gtatttgtctccagcctttctgtcaaaataaaatccaattcgttgtgtccttaaactttgctagaaatgattataaatgtgtcgcctattgtctgtgaattcttcatgataaactctcttatgaacaaaaaggataatgacatttaactctgaatataactttttttatttcatgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGATGCCCTACATACCATGCATGATGGGAAATTTTTACACCTTCCTGTCATTG
                                                                                                                | |||||||| | |   || ||           ||  ||| |  | | ||||  |   |    |||||||||||||||||||||| ||||| |  ||| | || ||| ||||||| ||||| || ||||||||||| || ||||| ||| | |||||||| ||  | |
--------------------------------------------------------------------------------------------------------------gtaatctcttataatcttcaacga-----------aagcctgtacttcagttttactggat----ttcagGTCATGACTCCAAATCCTGAATGCGTTACACTGGAAACAACCATTGTAGATGCACTCCATACCATGCACGACGGGAAGTTTCTTCACCTTCCAGTGGTAG

upper sequence: Vv17s0000g01200.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ12244 (Selaginella moellendorffii), 3'ss of exon 7
gtatttgtctccagcctttctgtcaaaataaaatccaattcgttgtgtccttaaactttgctagaaatgattataaatgtgtcgcctattgtctgtgaattcttcatgataaactctcttatgaacaaaaaggataatgacatttaactctgaatataactttttttatttcatgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGATGCCCTACATACCATGCATGATGGGAAATTTTTACACCTTCCTGTCATTG
                                                                                                                | |||||||| | |   || ||           ||  ||| |  | | ||||  |   |    |||||||||||||||||||||| ||||| |  ||| | || ||| ||||||| || || || ||||||||||| || ||||| ||| | |||||||| ||  | |
--------------------------------------------------------------------------------------------------------------gtaatctcttataatcttcaacga-----------aagcctgtacttcagttttgctggat----ttcagGTCATGACTCCAAATCCTGAATGCGTTACACTGGAAACAACCATTGTAGACGCACTCCATACCATGCACGACGGGAAGTTTCTTCACCTTCCAGTGGTAG

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|26264368|gb|CA815431.1|CA815431
EST:     TGCGGGTC-TAGCACAAAATCTTCATCCAGAATCCACTCCAGTGGAGAAG                         GTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGAT
genomic: TGCGGGTCATAGCACAAAATCTTCATCCAGAATCCACTCCAGTGGAGAAGgtatttgtct ... tcatgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGAT
EST: gi|71885134|gb|DT034189.1|DT034189
EST:     TGCGGGTCATAGCACAAAATCTTCATCCAGAATCCACTCCAGTGGAGAAG                         GTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGAT
genomic: TGCGGGTCATAGCACAAAATCTTCATCCAGAATCCACTCCAGTGGAGAAGgtatttgtct ... tcatgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGAT
EST: gi|71858444|gb|DT007499.1|DT007499
EST:     TGCGGGTCATAGCACAAAATCTTCATCCAGAATCCACTCCAGTGGAGAAG                         GTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGAT
genomic: TGCGGGTCATAGCACAAAATCTTCATCCAGAATCCACTCCAGTGGAGAAGgtatttgtct ... tcatgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGAT
EST: gi|71889831|gb|DT038886.1|DT038886
EST:     TGCGGGTCATAGCACAAAATCTTCATCCAGAATCCACTCCAGTGGAGAAG                         GTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGAT
genomic: TGCGGGTCATAGCACAAAATCTTCATCCAGAATCCACTCCAGTGGAGAAGgtatttgtct ... tcatgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caaaaaggataatgacatttaactctgaatataactttttttatttcatgttcagGTCATGACTCCAAATCCAGAATGTGCAACAATTGATACACCCATTGTTGATGCCCTACATACCATGCATGATGGGAAATTTTTACACCTTCCTGTCATTG
                            atataac  putative branch site (score: 3)
                                  ctttttttatttcat  CT-rich tract
                atttaactctgaatat  TA-rich tract