Brassica napus Variation Search (ZS11 )
×
Basic information of gene(s)
ZS11 ID
Darmor ID
AtGI/Name
Position
Seq/Exp/JBR
SNPs No.
SNP No.(High/Moderate/Low/Modifer)
SV No.
SV No.(INS/DEL)
Multi-locus selector
submit
Multi-locus model
Phylogenetic tree, gene structure and variation distribution
Define the upstream and downstream of gene
Choose flanking regions of gene to show.
0 kb
1 kb
1.5 kb
2 kb
3 kb
5 kb
10 kb
50 kb
Small Variations in 0 kb flanking region
PIC :
polymorphism information content
Selector
Chr.
Position
Alt (allele)
Ref (allele)
JBrowser
Alt (frequency)
Ref (frequency)
PIC
Alt (num)
Ref (num)
Function type
Variation type
Functional annotations
SV Information in 0 kb flanking region
Selector
Chr.
Start
End
ID
Len
Ref
Alt
Freq
JBrowser
submit
Population Information
Accession Name
Germplasm
Origin
Country
City
Subpopulation
Population
Genotype
Gene structure and SNP distribution
The inverted triangle symbols indicate variations, click it to see detailed information in table.
Chr.
Position
Alt (allele)
Ref (allele)
JBrowser
Alt (frequency)
Ref (frequency)
PIC
Alt (num)
Ref (num)
Function type
Variation type
Functional annotations
Gene structure and SNP/SV distribution
The inverted triangle symbols indicate variations, click it to see detailed information in table.
Chr.
Position
Alt (allele)
Ref (allele)
JBrowser
Alt (frequency)
Ref (frequency)
PIC
Alt (num)
Ref (num)
Function type
Variation type
Functional annotations
Annotation and statistics of SNPs
Haplotype in 0 kb flanking region
PIC :
polymorphism information content
Chr.
Position
Alt (allele)
Ref (allele)
JBrowser
Alt (frequency)
Ref (frequency)
PIC
Alt (num)
Ref (num)
Function type
Variation type
Functional annotations
Information of Haplotypes in 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.
submit
Heatmap of Haplotypes in 0 kb flanking
region
submit
Allele frequency of
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.
Subpopulation
Winter
Spring
Semi-Winter
Kale
Swede
Vegetable
Synthetic
Fodder
Unknown
Source
(Schmutzer et al., 2015)
(Wu et al., 2019)
(Lu et al., 2019)
(An et al., 2019)
(Song et al., 2020)
(Tang et al., 2021)
(Hu et al., 2022)
(Zhang et al., 2024)
Our_study
Other
More config
submit
ecotype switch
W: Winter accessions
S: Spring accessions
MIX: Early double-high (high erucic acid and high
glucosinolate) rapeseed
accessions from high-latitude regions (pre-1980s)
KS: Kale and Swede
SW1: Double-low (low erucic acid & low glucosinolate)
breeding
materials from Wuhan region
SW2: Major cultivars in lower Yangtze River and Hunan
(including Ningyou,
Zheshuang, Xiangyou series)
SW3: Early semi-winter type double-high rapeseed varieties
SW4: Modern double-low semi-winter varieties in Southwest China
SW5: Modern double-low semi-winter varieties in Yangtze River
Basin
(including Huashuang, Huyou, Zheyou series and early Zhongshuang series)
SW6: Zhongshuang 11-related varieties
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.
Region
Asia
Europe
South America
North America
Africa
Oceania
Unknown
Source
(Schmutzer et al., 2015)
(Wu et al., 2019)
(Lu et al., 2019)
(An et al., 2019)
(Song et al., 2020)
(Tang et al., 2021)
(Hu et al., 2022)
(Zhang et al., 2024)
Our_study
Other
More config
submit
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.
Palmitic acid content (C16:0)
Stearic acid content (C18:0)
Oleic acid content (C18:1)
Linoleic acid content (C18:2)
Linolenic acid content (C18:3)
Eicosenoic acid content (C20:1)
Erucic acid content (C22:1)
Seed glucosinolate content (SGC)
Seed oil content (SOC)
Oil content (OC2016WH)
Plant height
Main inflorescence length
Main inflorescence silique number
Silique length
Thousand seed weight
Seed number per silique
Branch height
Branch number
Flowering time
Flowering time at Xining in 2013
Flowering time at Lanzhou in 2013
Flowering time at Wuhan in 2013
Cd translocation coefficient (greenhouse, 2013)
Cd translocation coefficient (greenhouse, 2014)
Cd translocation coefficient (natural environment,
2014)
Cd translocation coefficient (BLUP)
Cd translocation coefficient (means))
root Cd concentration (greenhouse, 2013)
root Cd concentration (greenhouse, 2014)
root Cd concentration (natural environment, 2014)
root Cd concentration (BLUP)
root Cd concentration (means)
shoot Cd concentration (greenhouse, 2013)
shoot Cd concentration (greenhouse, 2014)
shoot Cd concentration (natural environment, 2014)
shoot Cd concentration (BLUP)
shoot Cd concentration (means)
Seed oil content (%) in CX
Seed oil content (%) in JH
Protein content (%)
Trichome phenotype at CX
Trichome phenotype at JH
Branch angle (Changsha, China,
2012/2013)
Branch angle (Nanjing, China,
2012/2013)
Branch angle (Changsha, China,
2013/2014)
Branch angle (Wuhan, China,
2013/2014)
Branch angle (BLUP)
Plant height (Chongqing, China, 2013)
Plant height (Changsha, China, 2013)
Plant height (Nanjing, China, 2013)
Plant height (Chongqing, China, 2014)
Plant height (Changsha, China, 2014)
Plant height (Nanjing, China, 2014)
Plant height (BLUP)
Aboveground dry weight(CK)
Aboveground dry weight(T2)
Aboveground dry weight(T2/CK)
Germination rate(CK)
Germination rate(T1)
Germination rate(T2)
Germination rate(T1/CK)
Germination rate(T2/CK)
Germination potential(CK)
Germination potential(T1)
Germination potential(T2)
Germination potential(T1/CK)
Germination potential(T2/CK)
Germination root length(CK)
Germination root length(T1)
Germination root length(T1/CK)
Germination shoot length(CK)
Germination shoot length(T1)
Germination shoot length(T1/CK)
Leaf area(CK)
Leaf area(T2)
Leaf area(T2/CK)
Malondialdehyde(CK)
Malondialdehyde(T2)
Malondialdehyde(T2/CK)
Plant height(CK)
Plant height(T2)
Plant height(T2/CK)
Proline(CK)
Proline(T2)
Proline(T2/CK)
Root dry weight(CK)
Root dry weight(T2)
Root dry weight(T2/CK)
Relative electrical conductivity(CK)
Relative electrical conductivity(T2)
Relative electrical conductivity(T2/CK)
Root length(CK)
Root length(T2)
Root length(T2/CK)
Chlorophyll content(CK)
Chlorophyll content(T2)
Chlorophyll content(T2/CK)
Total dry weight(CK)
Total dry weight(T2)
Total dry weight(T2/CK)
Plant height(Seeding stage, Control condition)
Plant height(Seeding stage, Low salt-alkali
condition)
Plant height(Seeding stage, High salt-alkali
condition)
Plant height(Seeding stage, Low salt-alkali,
Tolerance
coefficients)
Plant height(Seeding stage, High salt-alkali,
Tolerance
coefficients)
Ground dry weight(Seeding stage, Control
condition)
Ground dry weight(Seeding stage, Low salt-alkali
condition)
Ground dry weight(Seeding stage, High salt-alkali
condition)
Ground dry weight(Seeding stage, Low salt-alkali,
Tolerance coefficients)
Ground dry weight(Seeding stage, High salt-alkali,
Tolerance coefficients)
Plant height(Mature stage, Control condition)
Plant height(Mature stage, Low salt-alkali
condition)
Plant height(Mature stage, High salt-alkali
condition)
Plant height(Mature stage, Low salt-alkali,
Tolerance
coefficients)
Plant height(Mature stage, High salt-alkali,
Tolerance
coefficients)
Ground dry weight(Mature stage, Control condition)
Ground dry weight(Mature stage, Low salt-alkali
condition)
Ground dry weight(Mature stage, High salt-alkali
condition)
Ground dry weight(Mature stage, Low salt-alkali,
Tolerance coefficients)
Ground dry weight(Mature stage, High salt-alkali,
Tolerance coefficients)
Yield(Mature stage, Control condition)
Yield(Mature stage, Low salt-alkali condition)
Yield(Mature stage, High salt-alkali condition)
Yield(Mature stage, Low salt-alkali, Tolerance
coefficients)
Yield(Mature stage, High salt-alkali, Tolerance
coefficients)
Fontsize(title)
Fontsize(axis)
Fontweight(title)
yes
no
Width(chart)
button
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.
Selector
ID
Trait
Group
Unit
submit
Haplotype expression violin
± 0 kb
According to the haplotype you submit, the chart shows the expression level of haplotypes.
Expression And Population of
Accession Name
Germplasm
Origin
Country
City
Subpopulation
Population
Genotype
Expression
Information of SNPs in 0 kb flanking region
PIC :
polymorphism information content
Selector
Chr.
Position
Alt (allele)
Ref (allele)
JBrowser
Alt (frequency)
Ref (frequency)
PIC
Alt (num)
Ref (num)
Function type
Variation type
Functional annotations
submit
Population Information
Accession Name
Germplasm
Origin
Country
City
Subpopulation
Population
Genotype
Allele frequency of
Subpopulation
Winter
Spring
Semi-Winter
Kale
Swede
Vegetable
Synthetic
Fodder
Unknown
Source
(Schmutzer et al., 2015)
(Wu et al., 2019)
(Lu et al., 2019)
(An et al., 2019)
(Song et al., 2020)
(Tang et al., 2021)
(Hu et al., 2022)
(Zhang et al., 2024)
Our_study
Other
More config
submit
ecotype switch
W: Winter accessions
S: Spring accessions
MIX: Early double-high (high erucic acid and high
glucosinolate) rapeseed
accessions from high-latitude regions (pre-1980s)
KS: Kale and Swede
SW1: Double-low (low erucic acid & low glucosinolate)
breeding
materials from Wuhan region
SW2: Major cultivars in lower Yangtze River and Hunan
(including Ningyou,
Zheshuang, Xiangyou series)
SW3: Early semi-winter type double-high rapeseed varieties
SW4: Modern double-low semi-winter varieties in Southwest China
SW5: Modern double-low semi-winter varieties in Yangtze River
Basin
(including Huashuang, Huyou, Zheyou series and early Zhongshuang series)
SW6: Zhongshuang 11-related varieties
Geographical distribution of
Region
Asia
Europe
South America
North America
Africa
Oceania
Unknown
Source
(Schmutzer et al., 2015)
(Wu et al., 2019)
(Lu et al., 2019)
(An et al., 2019)
(Song et al., 2020)
(Tang et al., 2021)
(Hu et al., 2022)
(Zhang et al., 2024)
Our_study
Other
More config
submit
Phenotypic value of
Palmitic acid content (C16:0)
Stearic acid content (C18:0)
Oleic acid content (C18:1)
Linoleic acid content (C18:2)
Linolenic acid content (C18:3)
Eicosenoic acid content (C20:1)
Erucic acid content (C22:1)
Seed glucosinolate content (SGC)
Seed oil content (SOC)
Oil content (OC2016WH)
Plant height
Main inflorescence length
Main inflorescence silique number
Silique length
Thousand seed weight
Seed number per silique
Branch height
Branch number
Flowering time
Flowering time at Xining in 2013
Flowering time at Lanzhou in 2013
Flowering time at Wuhan in 2013
Cd translocation coefficient (greenhouse, 2013)
Cd translocation coefficient (greenhouse, 2014)
Cd translocation coefficient (natural environment,
2014)
Cd translocation coefficient (BLUP)
Cd translocation coefficient (means)
root Cd concentration (greenhouse, 2013)
root Cd concentration (greenhouse, 2014)
root Cd concentration (natural environment, 2014)
root Cd concentration (BLUP)
root Cd concentration (means)
shoot Cd concentration (greenhouse, 2013)
shoot Cd concentration (greenhouse, 2014)
shoot Cd concentration (natural environment, 2014)
shoot Cd concentration (BLUP)
shoot Cd concentration (means)
Seed oil content (%) in CX
Seed oil content (%) in JH
Protein content (%)
Trichome phenotype at CX
Trichome phenotype at JH
Branch angle (Changsha, China,
2012/2013)
Branch angle (Nanjing, China,
2012/2013)
Branch angle (Changsha, China,
2013/2014)
Branch angle (Wuhan, China, 2013/2014)
Branch angle (BLUP)
Plant height (Chongqing, China, 2013)
Plant height (Changsha, China, 2013)
Plant height (Nanjing, China, 2013)
Plant height (Chongqing, China, 2014)
Plant height (Changsha, China, 2014)
Plant height (Nanjing, China, 2014)
Plant height (BLUP)
Aboveground dry weight(CK)
Aboveground dry weight(T2)
Aboveground dry weight(T2/CK)
Germination rate(CK)
Germination rate(T1)
Germination rate(T2)
Germination rate(T1/CK)
Germination rate(T2/CK)
Germination potential(CK)
Germination potential(T1)
Germination potential(T2)
Germination potential(T1/CK)
Germination potential(T2/CK)
Germination root length(CK)
Germination root length(T1)
Germination root length(T1/CK)
Germination shoot length(CK)
Germination shoot length(T1)
Germination shoot length(T1/CK)
Leaf area(CK)
Leaf area(T2)
Leaf area(T2/CK)
Malondialdehyde(CK)
Malondialdehyde(T2)
Malondialdehyde(T2/CK)
Plant height(CK)
Plant height(T2)
Plant height(T2/CK)
Proline(CK)
Proline(T2)
Proline(T2/CK)
Root dry weight(CK)
Root dry weight(T2)
Root dry weight(T2/CK)
Relative electrical conductivity(CK)
Relative electrical conductivity(T2)
Relative electrical conductivity(T2/CK)
Root length(CK)
Root length(T2)
Root length(T2/CK)
Chlorophyll content(CK)
Chlorophyll content(T2)
Chlorophyll content(T2/CK)
Total dry weight(CK)
Total dry weight(T2)
Total dry weight(T2/CK)
Plant height(Seeding stage, Control condition)
Plant height(Seeding stage, Low salt-alkali condition)
Plant height(Seeding stage, High salt-alkali
condition)
Plant height(Seeding stage, Low salt-alkali,
Tolerance
coefficients)
Plant height(Seeding stage, High salt-alkali,
Tolerance
coefficients)
Ground dry weight(Seeding stage, Control condition)
Ground dry weight(Seeding stage, Low salt-alkali
condition)
Ground dry weight(Seeding stage, High salt-alkali
condition)
Ground dry weight(Seeding stage, Low salt-alkali,
Tolerance coefficients)
Ground dry weight(Seeding stage, High salt-alkali,
Tolerance coefficients)
Plant height(Mature stage, Control condition)
Plant height(Mature stage, Low salt-alkali condition)
Plant height(Mature stage, High salt-alkali condition)
Plant height(Mature stage, Low salt-alkali, Tolerance
coefficients)
Plant height(Mature stage, High salt-alkali,
Tolerance
coefficients)
Ground dry weight(Mature stage, Control condition)
Ground dry weight(Mature stage, Low salt-alkali
condition)
Ground dry weight(Mature stage, High salt-alkali
condition)
Ground dry weight(Mature stage, Low salt-alkali,
Tolerance coefficients)
Ground dry weight(Mature stage, High salt-alkali,
Tolerance coefficients)
Yield(Mature stage, Control condition)
Yield(Mature stage, Low salt-alkali condition)
Yield(Mature stage, High salt-alkali condition)
Yield(Mature stage, Low salt-alkali, Tolerance
coefficients)
Yield(Mature stage, High salt-alkali, Tolerance
coefficients)
Fontsize(title)
Fontsize(axis)
Fontweight(title)
yes
no
submit
p-value:
Phenotypic value of
Selector
ID
Trait
Group
Unit
submit
p-value:
Expression of
p-value:
Expression And Population of
Accession Name
Germplasm
Origin
Country
City
Subpopulation
Population
Genotype
Expression
Define the upstream and downstream of gene
Choose flanking region of gene to show.
0 kb
1 kb
1.5 kb
2 kb
3 kb
5 kb
10 kb
50 kb
Gene structure and SV distribution
The inverted triangle symbols indicate variations, click it to see detailed information in table.
SV information in
Selector
Chr.
Start
End
ID
Len
Ref
Alt
Freq
JBrowser
Population Information
Accession Name
Germplasm
Origin
Country
City
Subpopulation
Population
Genotype
SV frequency of
Subpopulation
Winter
Spring
Semi-Winter
Kale
Swede
Vegetable
Synthetic
Fodder
Unknown
Source
(Schmutzer et al., 2015)
(Wu et al., 2019)
(Lu et al., 2019)
(An et al., 2019)
(Song et al., 2020)
(Tang et al., 2021)
(Hu et al., 2022)
(Zhang et al., 2024)
Our_study
Other
More config
submit
ecotype switch
W: Winter accessions
S: Spring accessions
MIX: Early double-high (high erucic acid and high
glucosinolate) rapeseed
accessions from high-latitude regions (pre-1980s)
KS: Kale and Swede
SW1: Double-low (low erucic acid & low glucosinolate)
breeding
materials from Wuhan region
SW2: Major cultivars in lower Yangtze River and Hunan
(including Ningyou,
Zheshuang, Xiangyou series)
SW3: Early semi-winter type double-high rapeseed varieties
SW4: Modern double-low semi-winter varieties in Southwest China
SW5: Modern double-low semi-winter varieties in Yangtze River
Basin
(including Huashuang, Huyou, Zheyou series and early Zhongshuang series)
SW6: Zhongshuang 11-related varieties
Geographical distribution map of
Region
Asia
Europe
South America
North America
Africa
Oceania
Unknown
Source
(Schmutzer et al., 2015)
(Wu et al., 2019)
(Lu et al., 2019)
(An et al., 2019)
(Song et al., 2020)
(Tang et al., 2021)
(Hu et al., 2022)
(Zhang et al., 2024)
Our_study
Other
More config
submit
Phenotypic value of
Palmitic acid content (C16:0)
Stearic acid content (C18:0)
Oleic acid content (C18:1)
Linoleic acid content (C18:2)
Linolenic acid content (C18:3)
Eicosenoic acid content (C20:1)
Erucic acid content (C22:1)
Seed glucosinolate content (SGC)
Seed oil content (SOC)
Oil content (OC2016WH)
Plant height
Main inflorescence length
Main inflorescence silique number
Silique length
Thousand seed weight
Seed number per silique
Branch height
Branch number
Flowering time
Flowering time at Xining in 2013
Flowering time at Lanzhou in 2013
Flowering time at Wuhan in 2013
Cd translocation coefficient (greenhouse, 2013)
Cd translocation coefficient (greenhouse, 2014)
Cd translocation coefficient (natural environment,
2014)
Cd translocation coefficient (BLUP)
Cd translocation coefficient (means))
root Cd concentration (greenhouse, 2013)
root Cd concentration (greenhouse, 2014)
root Cd concentration (natural environment, 2014)
root Cd concentration (BLUP)
root Cd concentration (means)
shoot Cd concentration (greenhouse, 2013)
shoot Cd concentration (greenhouse, 2014)
shoot Cd concentration (natural environment, 2014)
shoot Cd concentration (BLUP)
shoot Cd concentration (means)
Seed oil content (%) in CX
Seed oil content (%) in JH
Protein content (%)
Trichome phenotype at CX
Trichome phenotype at JH
Branch angle (Changsha, China,
2012/2013)
Branch angle (Nanjing, China,
2012/2013)
Branch angle (Changsha, China,
2013/2014)
Branch angle (Wuhan, China, 2013/2014)
Branch angle (BLUP)
Plant height (Chongqing, China, 2013)
Plant height (Changsha, China, 2013)
Plant height (Nanjing, China, 2013)
Plant height (Chongqing, China, 2014)
Plant height (Changsha, China, 2014)
Plant height (Nanjing, China, 2014)
Plant height (BLUP)
Aboveground dry weight(CK)
Aboveground dry weight(T2)
Aboveground dry weight(T2/CK)
Germination rate(CK)
Germination rate(T1)
Germination rate(T2)
Germination rate(T1/CK)
Germination rate(T2/CK)
Germination potential(CK)
Germination potential(T1)
Germination potential(T2)
Germination potential(T1/CK)
Germination potential(T2/CK)
Germination root length(CK)
Germination root length(T1)
Germination root length(T1/CK)
Germination shoot length(CK)
Germination shoot length(T1)
Germination shoot length(T1/CK)
Leaf area(CK)
Leaf area(T2)
Leaf area(T2/CK)
Malondialdehyde(CK)
Malondialdehyde(T2)
Malondialdehyde(T2/CK)
Plant height(CK)
Plant height(T2)
Plant height(T2/CK)
Proline(CK)
Proline(T2)
Proline(T2/CK)
Root dry weight(CK)
Root dry weight(T2)
Root dry weight(T2/CK)
Relative electrical conductivity(CK)
Relative electrical conductivity(T2)
Relative electrical conductivity(T2/CK)
Root length(CK)
Root length(T2)
Root length(T2/CK)
Chlorophyll content(CK)
Chlorophyll content(T2)
Chlorophyll content(T2/CK)
Total dry weight(CK)
Total dry weight(T2)
Total dry weight(T2/CK)
Plant height(Seeding stage, Control condition)
Plant height(Seeding stage, Low salt-alkali condition)
Plant height(Seeding stage, High salt-alkali
condition)
Plant height(Seeding stage, Low salt-alkali,
Tolerance
coefficients)
Plant height(Seeding stage, High salt-alkali,
Tolerance
coefficients)
Ground dry weight(Seeding stage, Control condition)
Ground dry weight(Seeding stage, Low salt-alkali
condition)
Ground dry weight(Seeding stage, High salt-alkali
condition)
Ground dry weight(Seeding stage, Low salt-alkali,
Tolerance coefficients)
Ground dry weight(Seeding stage, High salt-alkali,
Tolerance coefficients)
Plant height(Mature stage, Control condition)
Plant height(Mature stage, Low salt-alkali condition)
Plant height(Mature stage, High salt-alkali condition)
Plant height(Mature stage, Low salt-alkali, Tolerance
coefficients)
Plant height(Mature stage, High salt-alkali,
Tolerance
coefficients)
Ground dry weight(Mature stage, Control condition)
Ground dry weight(Mature stage, Low salt-alkali
condition)
Ground dry weight(Mature stage, High salt-alkali
condition)
Ground dry weight(Mature stage, Low salt-alkali,
Tolerance coefficients)
Ground dry weight(Mature stage, High salt-alkali,
Tolerance coefficients)
Yield(Mature stage, Control condition)
Yield(Mature stage, Low salt-alkali condition)
Yield(Mature stage, High salt-alkali condition)
Yield(Mature stage, Low salt-alkali, Tolerance
coefficients)
Yield(Mature stage, High salt-alkali, Tolerance
coefficients)
Fontsize(title)
Fontsize(axis)
Fontweight(title)
yes
no
submit
p-value:
Phenotypic value of
Selector
ID
Trait
Group
Unit
submit
p-value:
Expression of
p-value:
Expression And Population of
Accession Name
Germplasm
Origin
Country
City
Subpopulation
Population
Genotype
Expression
