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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagctcagtttactccctttttctttagtagtctcttgaataagacagactggattggatgggattaaactccctgattattatgtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCACTGTTCGTGTTCCTCTGCGGTACTTCCTGGTTTGTCTTTGGCCTACTCG

Basic information

species Vitis vinifera
transcript Vv18s0001g15330.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g15330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G42040.1 (Glycine max), 3'ss of exon 4
-----gtaa-gctcagtttactccctttttctttagtagtctcttgaataagacagactggattggatgggattaaactccctgattattatgtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCACTGTTCGTGTTCCTCTGCGGTACTTCCTGGTTTGTCTTTGGCCTACTCG
       |   |  ||   ||     |  |  || ||| |      | |   |||  ||   | ||   |  ||||  |    ||||   |  ||  |||||||| | ||||||||||| |||||||| |||| ||||||||||||||| || ||||| || || |||||||| |||||||||||| ||||||| || || |
caggaacactacctaggaaaccgtgctagttgttggtaatactagtagttcaacattcttagtgggtgtgtgttaa--ttgtggatttgaaactatgtgcagAGACTAGTGATCAAAACCAAGAGTGTGGAGTTCATGCCCTTCTTCTTGTCTCTGTTTGTTTTTCTCTGCGGCACTTCCTGGTTTATCTTTGGTCTGCTAG

upper sequence: Vv18s0001g15330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G12740.1 (Glycine max), 3'ss of exon 4
---------gtaagctcagtttactccctttttctttagtagtctcttgaataaga--cagactggattggatgggattaaactccctgattattatgtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCACTGTTCGTGTTCCTCTGCGGTACTTCCTGGTTTGTCTTTGGCCTACTCG
         |  || ||| | ||       | |   || || |   |||   ||||  |||| ||| |    || | |||   |    ||||   |  |   |||||||| | ||||||||||| |||||||| |||| ||||||||||||||| || ||||| ||||| ||||| || |||||||||||| ||||||| || || |
tacatagctgagaggtcaatgtaaaaaaaatgttggtaatactag-ttgttcaagattcagagtgggtc---tgagttta---ttgtggatttgaaactctgtgcagAGACTAGTGATCAAAACTAAGAGTGTGGAGTTCATGCCCTTCTTCTTGTCGCTGTTTGTGTTTCTCTGTGGCACTTCCTGGTTTATCTTTGGTCTGCTAG

upper sequence: Vv18s0001g15330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G27610.1 (Glycine max), 3'ss of exon 4
--gtaagctcagtttactccctttttctttagtagtctcttgaat--aagacagactggattggatgggattaaactccctgattattatgtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCACTGTTCGTGTTCCTCTGCGGTACTTCCTGGTTTGTCTTTGGCCTACTCG
  | |||     |  | |    ||      | || | | |  | |  |||  |||     ||  || |  |     |   |    | | |||   |||||||  | ||||||||||| ||||| || |||| ||||||||||||| | ||||| || ||||||||||| |||||||| |||||  |||  || ||||| |
tagaaagtatgttgcaattatattccaaacattattgtataaattccaagtgagatatttttctatagattcttcattattttagagtgtgtgtgtgcagAGGCTAGTGATCAAAACCAAGAGCGTGGAGTTCATGCCCTTCTTCCTCTCACTCTTTGTGTTCCTCTGTGGTACTTCTTGGTTCATCTACGGGCTACTAG

upper sequence: Vv18s0001g15330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G09140.1 (Glycine max), 3'ss of exon 4
------gtaagctcagtttactccctttttctttagtagtctcttgaataagacagactggattggatggg---attaaactccctgattattatgtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCACTGTTCGTGTTCCTCTGCGGTACTTCCTGGTTTGTCTTTGGCCTACTCG
      | || || | |  |  |   || | | ||  | | || |  || ||| |   | |  | |||       |||     | |    ||| ||||  |||||||  | ||||| ||||| ||||| || |||| ||||||||||||| | ||||| || ||||||||||| || || || |||||  |||  || ||||| |
tatgttgcaatcttattccaaacatattat-tatataaatttcat--atgagatatttttgcatagatttttttgttagtgaactttggcattgtgta--tgcagAGGCTAGTGATAAAAACCAAGAGCGTGGAGTTCATGCCCTTCTTCCTCTCACTCTTTGTGTTCCTCTGTGGCACATCTTGGTTCATCTACGGGCTACTAG

upper sequence: Vv18s0001g15330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G21460.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagctcagtttactccctttttctttagtagtctcttgaataagacagactggattggatgggattaaactccctgattattatgtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCACTGTTCGTGTTCCTCTGCGGTACTTCCTGGTTTGTCTTTGGCCTACTCG
||||||  | |          | | ||||    |||  |   ||     |  |  |||   |   |||         | | |||    | || |||||| ||||| | || || |||||||||||||  ||||| ||||| || ||||| || || |||||||| |||||||| ||||| |||| ||| ||| |||
gtaagcaaactcaggattggatctttttaaagttctactctttacttttggattcattttgttaaattttgtgtttggttcattg---atttacagAGATTGGTGGTAAAGACGAAGAGTGTAGAGTTTATGCCATTCTTTTTGTCACTCTTTGTCTTCCTCTGTGGTACTTCGTGGTTCGTCTATGGTCTAATCG

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|110731976|gb|EE106858.1|EE106858
EST:     CCGCCACCATTTTCTCCATCATCATGTATGCATCACCTCTGTCCATCATG                         AGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCA
genomic: CCGCCACCATTTTCTCCATCATCATGTATGCATCACCTCTGTCCATCATGgtaagctcag ... gtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCA
EST: gi|110387851|gb|EC952549.1|EC952549
EST:     CCGCCACCATTTTCTCCATCATCATGTATGCATCACCTCTGTCCATCATG                         AGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCA
genomic: CCGCCACCATTTTCTCCATCATCATGTATGCATCACCTCTGTCCATCATGgtaagctcag ... gtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCA
EST: gi|33403642|gb|CF209269.1|CF209269
EST:     CCGCCACCATTTTCTCCATCATCATGTATGCATCACCTCTGTCCATCATG                         AGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCA
genomic: CCGCCACCATTTTCTCCATCATCATGTATGCATCACCTCTGTCCATCATGgtaagctcag ... gtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCA
EST: gi|30320705|gb|CD003967.1|CD003967
EST:     CCGCCACCATTTTCTCCATCATCATGTATGCATCACCTCTGTCCATCATG                         AGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCA
genomic: CCGCCACCATTTTCTCCATCATCATGTATGCATCACCTCTGTCCATCATGgtaagctcag ... gtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCA
EST: gi|27755280|gb|CB036035.1|CB036035
EST:     CCGCCACCATTTTCTCCATCATCATGTATGCATCACCTCTGTCCATCATG                         AGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCA
genomic: CCGCCACCATTTTCTCCATCATCATGTATGCATCACCTCTGTCCATCATGgtaagctcag ... gtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCA
EST: gi|110374121|gb|EC938672.1|EC938672
EST:     CCGCCACCATTTTCTCCATCATCATGTATGCATCACCTCTGTCCATCATG                         AGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCA
genomic: CCGCCACCATTTTCTCCATCATCATGTATGCATCACCTCTGTCCATCATGgtaagctcag ... gtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCA
EST: gi|110699794|gb|EE077102.1|EE077102
EST:     CCGCCACCATTTTCTCCATCATCATGTATGCATCACCTCTGTCCATCATG                         AGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCA
genomic: CCGCCACCATTTTCTCCATCATCATGTATGCATCACCTCTGTCCATCATGgtaagctcag ... gtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataagacagactggattggatgggattaaactccctgattattatgtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCACTGTTCGTGTTCCTCTGCGGTACTTCCTGGTTTGTCTTTGGCCTACTCG
                                ccctgat  putative branch site (score: 4)
                                   tgattattatgtaatt  TA-rich tract