Variant report

Variant	rs6474162
Chromosome Location	chr8:39507869-39507870
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10088799	0.90[ASN][1000 genomes]
rs10090933	0.83[ASN][1000 genomes]
rs10099250	0.90[ASN][1000 genomes]
rs10106405	0.81[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10107204	0.90[ASN][1000 genomes]
rs10108019	0.88[CHB][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs10108123	0.83[ASN][1000 genomes]
rs10108138	0.80[ASN][1000 genomes]
rs10110653	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10958560	0.80[ASN][1000 genomes]
rs11777357	0.82[CEU][hapmap];0.89[CHB][hapmap];0.87[JPT][hapmap]
rs11778483	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11785708	1.00[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap]
rs11991456	0.82[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12548363	0.85[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12550405	1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12550731	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13260129	1.00[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap]
rs13276944	0.94[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap]
rs13277716	0.82[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1349545	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1349547	0.82[CEU][hapmap];0.88[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1376720	1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap]
rs1376725	1.00[CEU][hapmap];0.94[CHB][hapmap];0.93[CHD][hapmap];0.94[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1376726	0.82[CEU][hapmap];0.88[CHB][hapmap];0.93[CHD][hapmap];0.88[JPT][hapmap]
rs2060802	1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]
rs2100310	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2305392	0.86[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2350466	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28730314	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34113924	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34312123	0.83[ASN][1000 genomes]
rs34466265	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35739681	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35893648	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3735880	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3824144	1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap]
rs4297011	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4376471	1.00[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4584120	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4733923	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4734001	0.89[CHB][hapmap];0.94[JPT][hapmap]
rs62511904	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62511905	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6474161	1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap]
rs6980957	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];0.89[YRI][hapmap]
rs72641297	0.91[ASN][1000 genomes]
rs7461232	0.80[ASN][1000 genomes]
rs7820447	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7831283	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7835711	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7837204	0.88[CHB][hapmap];0.87[JPT][hapmap]
rs7838350	0.82[CEU][hapmap];0.88[CHB][hapmap];0.89[CHD][hapmap];0.88[JPT][hapmap]
rs9298571	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9657175	0.82[CEU][hapmap];0.88[CHB][hapmap];0.93[CHD][hapmap];0.88[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015907	chr8:38967169-39718559	Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv539550	chr8:38967169-39718559	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	esv2759608	chr8:39174279-39597639	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv890725	chr8:39212435-39587864	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv2829895	chr8:39224968-39507869	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	esv2758154	chr8:39245798-39597639	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv1021340	chr8:39268667-39577905	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv890829	chr8:39378400-39522613	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv890830	chr8:39378400-39575853	Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv890832	chr8:39405337-39522613	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	nsv890833	chr8:39405337-39664696	Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
12	nsv611086	chr8:39408586-39522613	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
13	nsv890834	chr8:39429071-39586358	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	nsv890835	chr8:39439518-39522613	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
15	nsv890836	chr8:39480366-39650940	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
16	nsv890837	chr8:39507869-39609626	Active TSS Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:39506200-39509000	Enhancers	HUES48 Cell Line	embryonic stem cell
2	chr8:39506600-39508200	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr8:39506800-39508200	Enhancers	HUES6 Cell Line	embryonic stem cell
4	chr8:39507000-39508400	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr8:39507000-39509000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr8:39507000-39509600	Enhancers	iPS-15b Cell Line	embryonic stem cell
7	chr8:39507600-39508400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr8:39507600-39508800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr8:39507800-39508200	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr8:39507800-39508200	Enhancers	iPS-20b Cell Line	embryonic stem cell

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