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

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttttttttactcctttttagttggatgcataaatgagcaggtcctttgtcattagatttgattctgaactatttctcagATAATATACCTTGGGAAGCCTGACGGGCCTACTTGCCACACTGGATCTGAAACTTGCTATTATTCATCAGTATTTGATTTGTTAAAAAATCCTCAG

Basic information

species Vitis vinifera
transcript Vv14s0068g00910.t01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0068g00910.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g16940.1 (Oryza sativa), 3'ss of exon 2
gtatgttttttttactcctttttagttggatgcataaatgagcaggtcctttgtcattagatttgattctgaactatttct------cagATAATATACCTTGGGAAGCCTGACGGGCCTACTTGCCACACTGGATCTGAAACTTGCTATTATTCATCAGTATTTGATTTGTTAAAAAATCCTCAG
||| |  ||  ||    |  |         ||| | | ||   |       ||  | | |  ||| || |    | || ||       |||||||||||||||||||||| || |||||||||||||| || ||  | || ||||| || ||| | ||||| | ||||    || ||  | |  ||
gtaagccttgcttgtcacgatgcttacttttgcttcagtggata--ctaactgctaattgggttgtttgtttttttttcctgaaacatagATAATATACCTTGGGAAGCCAGATGGGCCTACTTGCCATACAGGGGCAGAGACTTGTTACTATACTTCAGTCTATGATGCTCTACAAGGTTCGAAG

upper sequence: Vv14s0068g00910.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G05140.1 (Glycine max), 3'ss of exon 4
-------------------------gtatgttttttttactcctttttagttggatgcataaatgagcaggtcctttgtcattagatttgattctgaactatttctcagATAATATACCTTGGGAAGCCTGACGGGCCTACTTGCCACACTGGATCTGAAACTTGCTATTATTCATCAGTATTTGATTTGTTAAAAAATCCTCAG
                         | ||  |||  ||  |||||||   || | |  || |    | | ||   ||    ||    |   ||    |||  |||||||||||||||||| || || ||||| |||||||| |||||||| ||  | ||||| ||||||||| ||||||| ||||| ||||||||  | |   ||
gtaagcacttcctttttttctcattggattatttaatttttccttttccttttggt--atcacaaggtatgttgattacttttt--ctctgttaactact-cttctcagATAATATACCTGGGAAAACCTGATGGGCCTACCTGCCACACAGGGGCAGAAACATGCTATTATACATCAGTTTTTGACTTGTTAAAGCAGCAAGAG
















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|110382332|gb|EC939187.1|EC939187
EST:     TGAATTTCATTAATATTCATGACATTTTTCTTGATTGTGATCACGATTCG                         ATAATATACCTTGGGAAGCCTGATGGGCCTACTTGCCACACTGGATCTGAA
genomic: TGAATTTCATTAATATTCATGACATTTTTCTTGATTGTGATCGCGATTCGgtatgttttt ... tatttctcagATAATATACCTTGGGAAGCCTGACGGGCCTACTTGCCACACTGGATCTGAA
EST: gi|351017321|gb|FQ435673.1|FQ435673
EST:     TGAATTTCATTAATATTCATGACATTTTTCTTGGTTGTGATCGCGATTCG                         ATAATATACCTTGGGAAGCCTGACGGGCCTACTTGCCACACTGGATCTGAA
genomic: TGAATTTCATTAATATTCATGACATTTTTCTTGATTGTGATCGCGATTCGgtatgttttt ... tatttctcagATAATATACCTTGGGAAGCCTGACGGGCCTACTTGCCACACTGGATCTGAA
EST: gi|351015089|gb|FQ444378.1|FQ444378
EST:     TGAATTTCATTAATATTCATGACATTTTTCTTGATTGTGATCGCGATTCG                         ATAATATACCTTGGGAAGCCTGACGGGCCTACTTGCCACACTGGATCTGAA
genomic: TGAATTTCATTAATATTCATGACATTTTTCTTGATTGTGATCGCGATTCGgtatgttttt ... tatttctcagATAATATACCTTGGGAAGCCTGACGGGCCTACTTGCCACACTGGATCTGAA
EST: gi|161712665|gb|FC062237.1|FC062237
EST:     TGAATTTCATTAATATTCATGACATTTTTCTTGATTGTGATCGCGATTCG                         ATAATATACCTTGGGAAGCCTGATGGGCCTACTTGCCACACTGGATCTGAA
genomic: TGAATTTCATTAATATTCATGACATTTTTCTTGATTGTGATCGCGATTCGgtatgttttt ... tatttctcagATAATATACCTTGGGAAGCCTGACGGGCCTACTTGCCACACTGGATCTGAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcataaatgagcaggtcctttgtcattagatttgattctgaactatttctcagATAATATACCTTGGGAAGCCTGACGGGCCTACTTGCCACACTGGATCTGAAACTTGCTATTATTCATCAGTATTTGATTTGTTAAAAAATCCTCAG
                               atttgat  putative branch site (score: 5)
                                            ctatttctc  putative PPT
                          attagattt  TA-rich tract