Variant report

Variant	rs9841979
Chromosome Location	chr3:54382046-54382047
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs12632768	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs1449326	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1449327	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1449328	0.96[ASN][1000 genomes]
rs1449329	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1449330	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1449333	1.00[CHB][hapmap];0.83[JPT][hapmap]
rs1473345	0.96[ASN][1000 genomes]
rs1473346	0.96[ASN][1000 genomes]
rs1473347	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1868497	0.96[ASN][1000 genomes]
rs1868502	0.93[ASN][1000 genomes]
rs1975611	0.95[ASN][1000 genomes]
rs1992963	1.00[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs2359789	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4974367	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4974370	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs731507	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7372444	1.00[CHB][hapmap];0.91[JPT][hapmap];0.95[ASN][1000 genomes]
rs7372695	0.93[ASN][1000 genomes]
rs7648293	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9311528	1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9311529	0.91[JPT][hapmap];0.84[EUR][1000 genomes]
rs9823559	0.82[EUR][1000 genomes]
rs9827201	0.86[CHB][hapmap];0.92[JPT][hapmap]
rs9830682	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs9835062	0.81[EUR][1000 genomes]
rs9836159	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9841318	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs9851130	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9855860	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs9861155	1.00[CHB][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs9862712	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9862718	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9870407	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs9877529	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9882299	0.80[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003621	chr3:53448934-54425322	Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv1014595	chr3:53944473-54846754	Enhancers Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv817210	chr3:54365684-54511164	Enhancers Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:54377200-54383200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr3:54377800-54383200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr3:54378400-54383200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr3:54378800-54389000	Weak transcription	Psoas Muscle	Psoas
5	chr3:54379000-54382200	Weak transcription	Fetal Lung	lung
6	chr3:54379200-54383200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr3:54380000-54383000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr3:54380000-54383200	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr3:54380000-54391200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr3:54380200-54387200	Weak transcription	Ovary	ovary
11	chr3:54380400-54382200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr3:54380400-54382400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr3:54381200-54383200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr3:54381200-54383200	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr3:54381200-54383200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr3:54381200-54383400	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr3:54381800-54382800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr3:54382000-54384800	Enhancers	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links