————Bridging the genotype–phenotype gap to accelerate
mining candidate variation of traits in Brassica napus
Brassica napus Variation Search
(ZS11)
Note: no data available, maybe no homologous gene of your input gene id/gene index/region was found or you input a
too long region (>100 kb), please recheck your input format.
Basic Information of gene
Select
ZS11 Gene ID
Darmor Gene ID
AtGI/Name
Position
Seq/Exp/JBR
SNPs No.
SNP No.(High/Moderate/Low/Modifer)
SV No.
SV No.(INS/DEL)
Phylogenetic tree, gene structure and variation
distribution
hovered region:
Define the upstream and downstream of gene
Choose flanking region of gene to show.
Gene structure and SV distribution
The inverted triangle symbols indicate variations, click it to see detailed information in table.
SV information in and its ±
kb flanking region
Select
Chromosome
Start
End
ID
Len
Ref
Alt
JBrowser
Freq
SV in subpopulation
yes
no
yes
no
Geographical distribution map of
yes
no
Phenotypic value of
yes
no
p-value: (t-test); (wilcox-test)
Expression of
yes
no
p-value: (t-test); (wilcox-test)
Define the upstream and downstream of gene
Choose flanking regions of gene to show.
Gene structure and SNP distribution
The inverted triangle symbols indicate variations, click it to see detailed information in table.
According to the gene you input, we provide basic snp information. (PIC: polymorphism information
content)
Chromosome
Posistion
Alt (allele)
Ref (allele)
JBrowser
Alt (frequency)
Ref (frequency)
PIC
Alt (num)
Ref (num)
Function_type
Variation_type
Functional_annotations
Information of Haplotypes in and its ± 0 kb flanking region
According to the gene/region you input, we extract haplotype
information.
Note that selected frequency all exceed 0.010. And heterozygous and missing records have been filtered
out.
ID
Haplotype
Frequency
Sample
Allele frequency of haplotype in Subpopulation
According to the haplotype you submit, the chart shows the proportion of each sub-population in the haplotypes.
hap_i(n) means the no.i haplotype had n pieces of material.
yes
no
yes
no
Geographic distribution of haplotypes in
According to the haplotype you submit, the chart shows the proportion of haplotypes in different continents.
hap_i(n) means the no.i haplotype had n pieces of material.
yes
no
Phenotypic value of haplotypes in
± 0 kb
According to the haplotype you submit, the chart shows the expression level of each haplotype in different
traits.
yes
no
p-value:(Anova)
Haplotype
Haplotype
P-value(t-test)
P-value(wilcox-test)
Expression of
Haplotype expression violin in region ± 0 kb
According to the haplotype you submit, the chart shows the expression level of haplotypes.
yes
no
p-value:(Anova)
Haplotype
Haplotype
P-value(t-test)
P-value(wilcox-test)
Information of SNPs in and its ± 0 kb flanking region
According to the gene you input, we provide basic snp information. (PIC: polymorphism information
content)
Select
Chromosome
Position
Alt (allele)
Ref (allele)
JBrowser
Alt (frequency)
Ref (frequency)
PIC
Alt (num)
Ref (num)
Function_type
Variation_type
Functional_annotations
Allele frequency of in Subpopulation
yes
no
yes
no
Geographical distribution of
yes
no
Phenotypic value of
yes
no
p-value: (t-test); (wilcox-test)
seed_20DAF&40DAF eQTL table of
According to the SNP you input, we provide basic seed_20DAF and seed_40DAF eqtl information.