Variant report

Variant	rs233929
Chromosome Location	chr6:132343184-132343185
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:132334438..132336912-chr6:132342769..132344935,2	MCF-7	breast:
2	6:132269655-132282174..6:132341777-132344161	GM12878	blood:

Variant related genes	Relation type
ENSG00000118523	Chromatin interaction
ENSG00000227220	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1011555	0.90[ASN][1000 genomes]
rs11154656	0.88[CHB][hapmap];0.88[JPT][hapmap]
rs12193041	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12197826	0.90[CHB][hapmap];0.82[CHD][hapmap];0.90[JPT][hapmap]
rs12202729	0.86[CHB][hapmap];0.81[CHD][hapmap]
rs12212906	0.96[ASN][1000 genomes]
rs12214274	0.85[CHB][hapmap]
rs12214663	0.97[ASN][1000 genomes]
rs12214716	0.96[ASN][1000 genomes]
rs2022390	0.90[ASN][1000 genomes]
rs2022391	0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2223258	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs2327196	0.89[CHB][hapmap];0.90[JPT][hapmap]
rs233928	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs233930	0.95[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs233931	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs233932	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs576718	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6900348	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs6903186	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs7356961	0.93[ASW][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap];0.97[LWK][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs7357002	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs737454	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs7742135	1.00[ASN][1000 genomes]
rs9373006	0.92[ASN][1000 genomes]
rs9373007	1.00[ASN][1000 genomes]
rs9373010	0.85[CHB][hapmap];0.80[CHD][hapmap];0.90[JPT][hapmap]
rs9373011	0.90[CHB][hapmap];0.82[CHD][hapmap];0.90[JPT][hapmap]
rs9375854	0.86[CHB][hapmap]
rs9385593	1.00[ASN][1000 genomes]
rs9388957	0.90[ASN][1000 genomes]
rs9399006	0.93[ASN][1000 genomes]
rs9399007	1.00[CHB][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs9402380	0.90[ASN][1000 genomes]
rs9402381	0.90[ASN][1000 genomes]
rs9402382	0.90[ASN][1000 genomes]
rs9402383	1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9483372	0.93[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.87[MKK][hapmap];0.91[YRI][hapmap];0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9483376	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs9483377	0.90[CHB][hapmap];0.82[CHD][hapmap];0.90[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv470861	chr6:132291785-132351866	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv886672	chr6:132299748-132349215	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv886673	chr6:132299748-132363507	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv427768	chr6:132300468-132398477	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:132340200-132346800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr6:132340600-132344000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr6:132340800-132343400	Enhancers	Colon Smooth Muscle	Colon
4	chr6:132340800-132343800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr6:132340800-132344600	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr6:132340800-132345000	Enhancers	HepG2	liver
7	chr6:132341000-132343600	Enhancers	Muscle Satellite Cultured Cells	--
8	chr6:132341600-132343200	Weak transcription	Brain Substantia Nigra	brain
9	chr6:132341600-132343400	Weak transcription	Ovary	ovary
10	chr6:132341600-132343800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr6:132342200-132343200	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr6:132342200-132343200	Weak transcription	HSMM	muscle
13	chr6:132342800-132343800	Enhancers	Fetal Intestine Large	intestine
14	chr6:132342800-132344000	Enhancers	Fetal Heart	heart
15	chr6:132342800-132345000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr6:132343000-132343600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr6:132343000-132343600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr6:132343000-132343600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr6:132343000-132343600	Enhancers	Rectal Smooth Muscle	rectum
20	chr6:132343000-132343600	Enhancers	HSMMtube	muscle
21	chr6:132343000-132343800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr6:132343000-132343800	Enhancers	Fetal Intestine Small	intestine
23	chr6:132343000-132343800	Enhancers	A549	lung
24	chr6:132343000-132344000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr6:132343000-132344800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr6:132343000-132345000	Enhancers	ES-I3 Cell Line	embryonic stem cell
27	chr6:132343000-132345200	Enhancers	iPS-20b Cell Line	embryonic stem cell

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