Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtggcctgaagatccaacttcccctctactcgggtagatagattttagtttattgatgagtctggtatggtcctgtcctgattccaatgttttctatgcattgtttggttcagGTGGGATGATGATGTGGTATTTAAGAACCAGGCCCGTGGTGAAGCTAAGACTCCCAAGCGCTTTATCAATGACACAATCAGAAATGACTTTCACAGGAAG

Basic information

species Vitis vinifera
transcript Vv19s0015g00980.t01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv19s0015g00980.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os06g01700.1 (Oryza sativa), 3'ss of exon 6
gtttgtggcctgaagatccaacttcccctctactcgggtagatagattttagtttattgatgagtctggtatggtcc-tgtcctgattccaatgttttctatgcattgtttggttcagGTGGGATGATGATGTGGTATTTAAGAACCAGGCCCGTGGTGAAGCTAAGACTCCCAAGCGCTTTATCAATGACACAATCAGAAATGACTTTCACAGGAAG
                      || | | |  |||     | |  |||  |   | | | | |   | | |   |   ||  || ||| | ||  | | |     || |||  | |||||||||||||||||| ||||| ||||||||||| ||||| ||  | ||||| || || || || ||||| ||||| ||||||| ||| || ||| | |||
--------------------gtttacacacagctcatcgtgctgtattacatgct-tcgctaatattagcacacttgatgaacttatttctatcctattt-----tttttttctgcagGTGGGATGATGATGTTGTATTCAAGAACCAGGCTCGTGGAGAGACCAAGACACCGAAACGTTTCATCAACGACACTATCAGAAGTGATTTCCACCGTAAG

upper sequence: Vv19s0015g00980.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G04620.1 (Glycine max), 3'ss of exon 6
gtttgtggcctgaagatccaacttcccctctactcgggtagatagattttagtttattgatgagtctggtatggtcctgtcctgattccaat--------gttttctatgca-ttgtttggttcagGTGGGATGATGATGTGGTATTTAAGAACCAGGCCCGTGGTGAAGCTAAGACTCCCAAGCGCTTTATCAATGACACAATCAGAAATGACTTTCACAGGAAG
|||||     |  | ||    |   |      ||     | |  || | |  |||  || | |  ||| |    | |||||   ||  || |        |||||  ||||| |||||| ||| |||||||||||||||||||| |||||||||||| ||||||||||| | || ||  | ||||| || ||||||||||| ||||| ||||| || || || || 
gtttg-actttagatatttttcaaactgctcgctaaaccaaaatgactgtt-tttcctgttaaccctgttggtttgctgtctcaatctcattttttttcggttttgcatgcacttgttttgtttagGTGGGATGATGATGTGGTGTTTAAGAACCAGTCCCGTGGTGAAACCAAAACAGCTAAGCGATTCATCAATGACACCATCAGGAATGATTTCCATAGAAAA

upper sequence: Vv19s0015g00980.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G15050.2 (Glycine max), 3'ss of exon 5
gtttgtggcctgaagat---ccaacttcccctctactcgggtagatagattttagtttattgatgagtctggtatggtcctgtcctgattccaat-------gttttctatgca-ttgtttggttcagGTGGGATGATGATGTGGTATTTAAGAACCAGGCCCGTGGTGAAGCTAAGACTCCCAAGCGCTTTATCAATGACACAATCAGAAATGACTTTCACAGGAAG
|||||   |  ||   |   | |||| |    | |  |     |  || ||||  | |  || | | |||  |    | |||||  |||  ||||       |||||  ||||| |||||| ||| |||||||||||||||||||| ||||||||||| |||||||||||| | || ||  | ||||| || || |||||||| ||||| ||||| || || || || 
gtttgactctagatacttttcaaactgcttgccaaaccaaaatgtcagttttt--tcttctgttaactctattgatttactgtctcgatctcaattttttgggttttgcatgcacttgttttgtttagGTGGGATGATGATGTGGTGTTTAAGAACCAAGCCCGTGGTGAAACCAAAACAGCTAAGCGATTCATTAATGACACCATCAGGAATGATTTCCATAGAAAA

upper sequence: Vv19s0015g00980.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G13200.1 (Arabidopsis thaliana), 3'ss of exon 6
gtttgtggcctgaagatccaacttcccctctactcgggtagatagattttagtttattgatgagtctggtatggtcctgtcctgattccaatgttttctatgcattgtttggttcagGTGGGATGATGATGTGGTATTTAAGAACCAGGCCCGTGGTGAAGCTAAGACTCCCAAGCGCTTTATCAATGACACAATCAGAAATGACTTTCACAGGAAG
||| |  || |    |    |  |    ||| |  |  |     |||| || || |||| ||      | |            ||| |  |   || ||   | |   ||  |||||||||||||||||||| ||||| || |||||||| |||||||||   ||  |||| |||||||| |||||||| |||||||| |||||||| ||||| || 
gttagcagcttttgaa----atcttgtttcttcgtgaatcttgggattata-ttaattgttgga---agca------------gatactgaaaattact---cgtctctt--ttcagGTGGGATGATGATGTTGTATTCAAAAACCAGGCACGTGGTGAAATGAAAGCTCCTAAGCGCTTCATCAATGATACAATCAGGAATGACTTCCACAGAAAA

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|110395620|gb|EC961287.1|EC961287
EST:     CGAGGAAACCCTCTGCTTAATAATCCTACGTCTTTCAATGTGAAAAGAAG                         GTGGGATGATGATGTGGTATTTAAGAACCAGGCCCGTGGTGAAGCTAAGAC
genomic: CGAGGAAACCCTCTGCTTAATAATCCTACGTCTTTCAATGTGAAAAGAAGgtttgtggcc ... tttggttcagGTGGGATGATGATGTGGTATTTAAGAACCAGGCCCGTGGTGAAGCTAAGAC
EST: gi|110366654|gb|EC930569.1|EC930569
EST:     CGAGGAAACCCTCTGCTTAATAATCCTACGTCTTTCAATGTGAAAAGAAG                         GTGGGATGATGATGTGGTATTTAAGAACCAGGCCCGTGGTGAAGCTAAGAC
genomic: CGAGGAAACCCTCTGCTTAATAATCCTACGTCTTTCAATGTGAAAAGAAGgtttgtggcc ... tttggttcagGTGGGATGATGATGTGGTATTTAAGAACCAGGCCCGTGGTGAAGCTAAGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agtctggtatggtcctgtcctgattccaatgttttctatgcattgtttggttcagGTGGGATGATGATGTGGTATTTAAGAACCAGGCCCGTGGTGAAGCTAAGACTCCCAAGCGCTTTATCAATGACACAATCAGAAATGACTTTCACAGGAAG
                 tcctgat  putative branch site (score: 3)
                           aatgtttt  TA-rich tract