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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cttcacttttccgtataattgtttatatcaacattattttttagataggcaagtttatatcaacattattagaatctgaatctgttatttttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATGGAATTGATTTGAGCACTGTAGATGTTAGCTATGTCAGCAGTCGCTCATG

Basic information

species Vitis vinifera
transcript Vv00s0187g00170.t01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0187g00170.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G08370.1 (Glycine max), 3'ss of exon 2
cttcacttttccgtataattgtttatatcaacattattttttagataggcaagtttatatcaacatta----ttagaatctgaatctgtt----atttttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATGGAATTGATTTGAGCACTGTAGATGTTAGCTATGTCAGCAGTCGCTCATG
         | | | |  |   ||||   |    | |  ||   | |  |  |  |  || |   |||    |||     ||||  ||||    | |||  | | ||||||||||||| || || ||||| ||||||||| | || ||| |||| |||||||| ||  | ||||| ||||||||||||||||||||||||||||| | 
-------catacatgtgttgacttatgatagtcatctgcttggcacaaccttggattcattacttttactatttacctcttgaaaatgtttaaaactttcatgcacaGCCAAGATACCCTTTCCATTGACACAGAGGTTTAGGTCAATGCTACAGAATGGAATAGACCTTAGCACCGTAGATGTTAGCTATGTCAGCAGTCGCTCTT-

upper sequence: Vv00s0187g00170.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G44410.1 (Glycine max), 3'ss of exon 5
cttcacttttccgtataattgtttatatcaacattattttttagataggc-aagtttatatcaac--attattagaatct---gaatctgttatttttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATGGAATTGATTTGAGCACTGTAGATGTTAGCTATGTCAGCAGTCGCTCATG
               |  |   ||||   |    | |  ||   ||||      || ||  | |   ||||||    |||    ||| | |||   |||    ||||||||||||| || || ||||| ||||||||| | || ||| |||| || ||||| ||  | ||||| ||||||||||||||||||||||||||||| ||
------cgcataaagtgctgacttatgatagtcatctgcttggcatagcttggattcattactatttattatttacctcttgaaaatgttttaaactttcatgcagCCAAGATACCCTTTCCATTGACACAGAGGTTTAGGTCAATGCTACAGAACGGAATAGACCTTAGCACAGTAGATGTTAGCTATGTCAGCAGTCGCTCTTG

upper sequence: Vv00s0187g00170.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G12590.1 (Arabidopsis thaliana), 3'ss of exon 4
--------------------------------------------------------------------------cttcacttttccgtataattgtttatatc-----aac------attattttttagataggcaagtttatatcaacattattagaatctgaatctgttatttttttccc-cagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATGGAATTGATTTGAGCACTGTAGATGTTAGCTATGTCAGCAGTCGCTCATG
                                                                           |  |  |  | || | | || ||  |||     |||      ||| |||    ||||  | | ||| | |  |  |   ||| |||| |  ||  | | ||| ||   ||||||| ||||| || ||  |||||||||||||  | || |||||||| ||||| ||||| ||||||||||| |||||||||||||| || ||||| || ||
gtttatttcctaaacaaagtgttttgcaattatttttcttggttacttcataaacagcaatcatgtatttgattttataactggctgtttcactgctttcatctgagaaaccagttaattgtttccatgatactctaatttttttataattccatagcatctaaggcttctttgtttatcttgcagCCAAAATACCATTTCCACTGACTCAGAGGTTCAGATCAATGTTACAGAATGGCATTGACTTGAGCACTGTCGATGTTAGCTATGTGAGTAGTCGTTCCTG

upper sequence: Vv00s0187g00170.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ16947 (Selaginella moellendorffii), 3'ss of exon 4
cttcacttttccgtataattgtttatatcaacattattttttagataggcaagtttatatcaacattattagaatctgaatctgttatttttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATGGAATTGATTTGAGCACTGTAGATGTTAGCTATGTCAGCAGTCGCTCATG
                                                   | |||||| || | ||  |    |||  |  ||     |||  |  ||||||| || ||||||||  | || || || || ||    ||||| ||||||||||| || |||||| | || ||||| |||||||||||||| || |||||
----------------------------------------------gtaatactttataccagcctttct----tctttaagtgcatcgtttgcctgcagCCAAAATTCCTTTCCCGCTCACGCAAAGATTCCGAGGGATGTTGCAAAATGGAATCGACTTGAGCTCGGTGGATGTGAGCTATGTCAGCAGCCGTTCATG

upper sequence: Vv00s0187g00170.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ16068 (Selaginella moellendorffii), 3'ss of exon 4
cttcacttttccgtataattgtttatatcaacattattttttagataggcaagtttatatcaacattattagaatctgaatctgttatttttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATGGAATTGATTTGAGCACTGTAGATGTTAGCTATGTCAGCAGTCGCTCATG
                                             ||      ||||||  | | ||  |    |||  |  ||     |||  |  ||||||| || ||||||||  | || || || || ||    ||||| ||||||||||| || |||||| | || ||||| |||||||||||||| || |||||
--------------------------------------------gtaatactttttatacaagcctttct----tctttacgtgcatcgtttgcctgcagCCAAAATTCCTTTCCCGCTCACGCAAAGATTCCGAGGGATGTTGCAAAATGGAATCGACTTGAGCTCGGTGGATGTGAGCTATGTCAGCAGCCGTTCATG

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|30132459|gb|CB917798.1|CB917798
EST:     ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
EST: gi|30136299|gb|CB921637.1|CB921637
EST:     ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
EST: gi|294966792|gb|GW837811.1|GW837811
EST:     ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
EST: gi|32250235|gb|CD716054.1|CD716054
EST:     ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
EST: gi|30135330|gb|CB920668.1|CB920668
EST:     ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
EST: gi|110407602|gb|EC973208.1|EC973208
EST:     ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
EST: gi|110428045|gb|EC994506.1|EC994506
EST:     ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
EST: gi|110417816|gb|EC983901.1|EC983901
EST:     ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
EST: gi|110712100|gb|EE089333.1|EE089333
EST:     ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
EST: gi|110428615|gb|EC995092.1|EC995092
EST:     GGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: GGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
EST: gi|352764273|gb|FQ471253.1|FQ471253
EST:     ACTCTTACTTTTGCTTGGGTTAACNNNNNNNNCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
EST: gi|110429192|gb|EC995681.1|EC995681
EST:     ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
EST: gi|27580483|gb|CB003178.1|CB003178
EST:     ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
EST: gi|110728851|gb|EE104791.1|EE104791
EST:     ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
EST: gi|30125541|gb|CB910880.1|CB910880
EST:     ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAG                         CCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG
genomic: ACTCTTACTTTTGCTTGGGTTAACTTTTTCTTCTCTGGATTTGTAGCAGgtctgttttt ... ttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taggcaagtttatatcaacattattagaatctgaatctgttatttttttccccagCCAAGATACCTTTCCCCTTGACTCAGAGGTTTCGCTCCATGTTACAAAATGGAATTGATTTGAGCACTGTAGATGTTAGCTATGTCAGCAGTCGCTCATG
                                   tctgttatttttttcc  CT-rich tract
        tttatatcaacattat  TA-rich tract