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

gtattatttccatcctcaccatcttcgcagaaccttcaatggcatggttgaaagtttgctaactcttgttctgttgtttcatgtatcagATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTGGCGGGGTGATGACCAAATTGATTCCCAGAAACACCGTTATCCCAACCAA

Basic information

species Vitis vinifera
transcript Vv16s0098g01580.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv16s0098g01580.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g02410.1 (Oryza sativa), 3'ss of exon 5
gtattatttccatc-ctcaccatcttcgcagaaccttcaatggc-atggttgaaagt-ttgctaactcttgttctg--ttgtttcatgtat-cagATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTGGCGGGGTGATGACCAAATTGATTCCCAGAAACACCGTTATCCCAACCAA
||   |  |  ||| |  ||    | |   |       ||   |   | |     || ||||  |  ||| |  ||  ||| ||   |||  |||||||||||||| |||||||||| || || || || ||||| || || || || || || |||||||| ||||| ||||| |||||||| ||||| |||||
gttcgaccttgatcacatacatagtcctttgggttggtaacaactgcgatcatctgtcttgcatatacttatcgtgctttgattttggtacgcagATATCCTTCTCCTGGATGTGGCACCCCTTACCCTCGGTATCGAGACTGTCGGTGGAGTCATGACCAAGTTGATCCCCAGGAACACCGTCATCCCCACCAA

upper sequence: Vv16s0098g01580.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G415007_T01 (Zea mays), 3'ss of exon 5
-----gtattatttccatcctcaccatcttcgcagaaccttcaatggcatggttgaaagtt-tgctaactcttgttctgttgtttcatgtatcagATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTGGCGGGGTGATGACCAAATTGATTCCCAGAAACACCGTTATCCCAACCAA
     ||  | |||| |      | ||    |       ||   |    |   ||    |  |||| ||    ||    || |  | ||   |||||||||| ||| | ||||||||||| ||||| || |||||||| || || || || || |||||||| ||||| || || ||||| || ||||| |||||
gttcggtgctctttc-actagtgctatagctgggtgtttttttttcttgtaagtggtcatcctgcttacataagtgtgattttgccttgatgcagATATCCTCCTCCTTGATGTGGCTCCTCTCACCCTGGGTATTGAGACCGTCGGTGGAGTCATGACCAAGTTGATCCCGAGGAACACTGTCATCCCGACCAA

upper sequence: Vv16s0098g01580.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G36600.1 (Glycine max), 3'ss of exon 5
----------gtattatttccatcctcaccatcttcgcagaa-ccttcaatggcatggttgaaagt---ttgcta--------actct-----tgttctgttgtttcatgtatc-agATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTGGCGGGGTGATGACCAAATTGATTCCCAGAAACACCGTTATCCCAACCAA
           | | || |   | ||||  |  |   |||||  | | |||   ||   || ||||   |||| |        ||| |     |||| ||| | |   || ||| ||||||||||||||||||||||||||| ||||| ||||| |||||||| ||||| ||||||||||| || ||||||||||||||||| |||||||| |||||
gtactacagtctgtaatctaacttctcattacttgtccagaaatcctaaatattatttatgcaagtagattgccacgcattacactttctcattgttgtgtggctctctggatccagATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTGGTGGGGTGATGACGAAGTTGATTCCCAGAAACACTGTTATCCCTACCAA

upper sequence: Vv16s0098g01580.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G02960.1 (Glycine max), 3'ss of exon 5
--------------------------gtattatttccatcctcaccatcttcgcagaaccttcaatggcatggttgaaagtt-tgctaactc-ttgttctgttgtttcatgtatc-agATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTGGCGGGGTGATGACCAAATTGATTCCCAGAAACACCGTTATCCCAACCAA
                            |||| ||        | |||            | |||    || ||   |  ||  |||  ||| ||||| ||| | |   || ||| ||||||||||||||||||||||||||| ||||| ||||| |||||||| ||||| ||||||||||| || ||||||||||||||||| |||||||| |||||
gtactgtagtctgtaatctaacttctcaattacttgtccagaaatcataaatattatttatgcaagtagattgtgacacattacgctgtctcattgttgtgtggctctctggatccagATATCCTTCTCTTGGATGTGGCTCCCCTCACCCTTGGAATTGAAACTGTTGGTGGGGTGATGACGAAGTTGATTCCCAGAAACACTGTTATCCCTACCAA

upper sequence: Vv16s0098g01580.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G02940.1 (Glycine max), 3'ss of exon 5
gtattatt-tccatcctcaccatcttcgcagaaccttcaatggcatggttgaaagtttgctaactcttgttctgttgtttcatgtatcagATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTGGCGGGGTGATGACCAAATTGATTCCCAGAAACACCGTTATCCCAACCAA
|||  ||  ||  |    |  || |  | |      |  || ||   |    |   || |||| | ||||   |   | || | |  |||||||||||||| ||||||||||||| |||||||| || |||||||| ||||| || || ||||| || ||||||||||||||||| |||||||| |||||
gtaccatagtctgtaaatattatttatggaag----tagattgctaagcattacactttctaattgttgtgtggcaatctc-tat-ccagATATCCTTCTCCTGGATGTGGCTCCCCTCACTCTCGGAATTGAAACTGTTGGTGGAGTCATGACAAAGTTGATTCCCAGAAACACTGTTATCCCGACCAA

upper sequence: Vv16s0098g01580.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G36620.1 (Glycine max), 3'ss of exon 5
--------------------------gtattatttccatcctcaccatcttcgcagaaccttcaatggcatggttgaaagtt-tgctaactc-ttgttctgttgtttcatgtatc-agATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTGGCGGGGTGATGACCAAATTGATTCCCAGAAACACCGTTATCCCAACCAA
                            |||| ||    |     |||              ||||   || | | |   |    ||  ||  | ||| ||| |    || |||| ||| ||||||||| ||||||||||||| |||||||| || |||||||| ||||| || || ||||| || ||||||||||||||||| ||||||||||||||
gtaccgtagtctgtaatgtagcttttaaattacttgtcccgaagtcataaatattatttacgcaattagattgctaagcataacactttctaatcgttgtgtggcaatatctatccagACATCCTTCTCCTGGATGTGGCTCCCCTCACTCTCGGAATTGAAACTGTTGGTGGAGTCATGACAAAGTTGATTCCCAGAAACACTGTTATCCCAACCAA

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|33402771|gb|CF208398.1|CF208398
EST:     TGCTGTACAAGGAAGCATCTTGAGTGGAGAGGGTGGTGATGAAACCAAAG                         ATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTG
genomic: TGCTGTACAAGGAAGCATCTTGAGTGGAGAGGGTGGTGATGAAACCAAAGgtattatttc ... catgtatcagATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTG
EST: gi|351029703|gb|FQ427543.1|FQ427543
EST:     TGCTGTACAAGGAAGCATCTTGAGTGGAGAGGGTGGTGATGAAACCAAAG                         ATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTG
genomic: TGCTGTACAAGGAAGCATCTTGAGTGGAGAGGGTGGTGATGAAACCAAAGgtattatttc ... catgtatcagATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTG
EST: gi|33402798|gb|CF208425.1|CF208425
EST:     TGCTGTACAAGGAAGCATCTTGAGTGGAGAGGGTGGTGATGAAACCAAAG                         ATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTG
genomic: TGCTGTACAAGGAAGCATCTTGAGTGGAGAGGGTGGTGATGAAACCAAAGgtattatttc ... catgtatcagATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcaatggcatggttgaaagtttgctaactcttgttctgttgtttcatgtatcagATATCCTTCTCTTGGATGTGGCTCCACTCACTCTTGGTATTGAAACGGTTGGCGGGGTGATGACCAAATTGATTCCCAGAAACACCGTTATCCCAACCAA
                      tgctaac  putative branch site (score: 1)
                                       ttgtttc  putative PPT
                aaagttt  TA-rich tract