Variant report

Variant	rs9402376
Chromosome Location	chr6:132287984-132287985
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	6:132176847-132180372..6:132286019-132296348	K562	blood:
2	6:132269655-132282174..6:132286019-132296348	Hela-S3	cervix:
3	chr6:132269891..132272682-chr6:132287930..132290943,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000118523	Chromatin interaction
ENSG00000227220	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10872386	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10872387	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11154654	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11154656	0.93[CEU][hapmap];0.81[CHB][hapmap];0.82[JPT][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12055428	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12192101	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12192108	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12202729	0.94[CEU][hapmap];0.84[CHB][hapmap];0.85[JPT][hapmap];0.86[EUR][1000 genomes]
rs12212771	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12214274	0.94[CEU][hapmap];0.85[CHB][hapmap];0.85[JPT][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12663962	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1930994	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1931001	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2022391	0.82[CEU][hapmap]
rs2027034	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4452668	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7747551	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7768193	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9373005	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9375854	0.87[CEU][hapmap];0.84[CHB][hapmap];0.85[JPT][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9388952	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9402377	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs975445	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv7968	chr6:131917172-132321099	Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:132275600-132299800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr6:132276600-132297800	Weak transcription	Ovary	ovary
3	chr6:132277400-132291200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr6:132277400-132305600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr6:132280800-132293800	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr6:132282000-132291400	Weak transcription	Fetal Brain Male	brain
7	chr6:132285400-132289600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr6:132285400-132297800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr6:132286000-132289200	Weak transcription	Stomach Mucosa	stomach
10	chr6:132287400-132288000	Enhancers	HSMM	muscle
11	chr6:132287400-132288000	Enhancers	Osteobl	bone
12	chr6:132287400-132288200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr6:132287400-132288200	Enhancers	HepG2	liver
14	chr6:132287600-132288000	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr6:132287600-132288000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:132287600-132288000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr6:132287600-132288000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr6:132287600-132288000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr6:132287600-132288200	Enhancers	Muscle Satellite Cultured Cells	--
20	chr6:132287800-132288000	Enhancers	H1 Cell Line	embryonic stem cell
21	chr6:132287800-132288200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr6:132287800-132288200	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr6:132287800-132288200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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