Variant report

Variant	rs1952362
Chromosome Location	chr6:39400877-39400878
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10947813	0.87[ASN][1000 genomes]
rs11962587	0.83[CHB][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs11964924	0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs11968704	0.86[JPT][hapmap]
rs11969059	0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs11969395	0.83[ASN][1000 genomes]
rs1410488	1.00[ASN][1000 genomes]
rs1546910	0.84[CHB][hapmap]
rs16892158	0.83[CHB][hapmap];0.93[JPT][hapmap]
rs1927774	1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1927775	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2026670	0.94[CHB][hapmap];0.94[CHD][hapmap];0.84[ASN][1000 genomes]
rs2073134	0.84[CHB][hapmap];0.86[CHD][hapmap]
rs2235817	0.86[JPT][hapmap]
rs2395727	1.00[ASN][1000 genomes]
rs28533484	0.86[ASN][1000 genomes]
rs35553201	0.86[ASN][1000 genomes]
rs4236064	0.83[CHB][hapmap];0.85[CHD][hapmap];0.89[YRI][hapmap]
rs4464790	0.86[ASN][1000 genomes]
rs4540261	0.88[CHD][hapmap];0.86[JPT][hapmap]
rs4711598	0.89[CHB][hapmap];0.91[CHD][hapmap];0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs4714253	0.89[CHB][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs4714254	1.00[ASN][1000 genomes]
rs4714255	0.83[CHB][hapmap];0.91[CHD][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs4714256	0.85[CHD][hapmap]
rs55676006	0.87[AFR][1000 genomes]
rs6458116	0.94[ASW][hapmap];0.92[LWK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs6901155	0.89[CHB][hapmap];0.86[CHD][hapmap];0.84[GIH][hapmap];0.86[JPT][hapmap]
rs9296298	0.94[CHB][hapmap];0.94[CHD][hapmap]
rs9296299	0.83[CHB][hapmap];0.91[CHD][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs9296300	0.82[CHD][hapmap]
rs9349120	0.89[CHB][hapmap];0.91[CHD][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs9357305	0.85[ASN][1000 genomes]
rs9367008	0.93[JPT][hapmap]
rs9367009	0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs9367012	0.86[JPT][hapmap]
rs9369117	0.99[ASN][1000 genomes]
rs9369119	0.82[CHD][hapmap];0.85[YRI][hapmap]
rs9380861	0.91[ASN][1000 genomes]
rs9380862	1.00[ASN][1000 genomes]
rs9380863	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9380864	0.89[CHB][hapmap];0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs9380865	0.89[CHB][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs9380867	0.92[JPT][hapmap]
rs9380868	0.81[CHB][hapmap];0.91[JPT][hapmap]
rs9380874	0.84[CHB][hapmap];0.84[CHD][hapmap]
rs9394592	0.89[CHB][hapmap];0.91[CHD][hapmap];0.93[JPT][hapmap];0.91[ASN][1000 genomes]
rs9394594	0.89[CHB][hapmap];0.91[CHD][hapmap];0.93[JPT][hapmap]
rs9394595	0.89[CHB][hapmap];0.91[CHD][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs9394598	0.93[JPT][hapmap]
rs9394599	0.88[CHD][hapmap];0.93[JPT][hapmap]
rs9394600	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9394616	0.82[JPT][hapmap]
rs9471103	1.00[ASN][1000 genomes]
rs9471113	0.88[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830645	chr6:39227601-39408310	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv885822	chr6:39327708-39721216	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39397000-39401400	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr6:39397000-39401800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr6:39397400-39401600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr6:39398200-39401600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr6:39398200-39401600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr6:39399200-39401400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr6:39399200-39401600	Enhancers	NHDF-Ad	bronchial
8	chr6:39399600-39401000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr6:39400200-39403000	Weak transcription	Brain Anterior Caudate	brain
10	chr6:39400400-39409200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:39400600-39401000	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr6:39400600-39401200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:39400600-39402000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr6:39400800-39401400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr6:39400800-39401600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

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