Variant report

Variant	rs1610725
Chromosome Location	chr6:29761522-29761523
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:29760425-29761859	GM19193	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:29760873..29763751-chr6:29786445..29789008,2	MCF-7	breast:

Variant related genes	Relation type
HCG4	TF binding region

Extended variants
information (count: 136 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:116)

rs_ID	r²[population]
rs1362068	0.85[EUR][1000 genomes]
rs1362069	0.84[EUR][1000 genomes]
rs1362070	0.85[EUR][1000 genomes]
rs1419641	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1610634	0.84[EUR][1000 genomes]
rs1610635	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1610636	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1610637	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1610640	0.86[EUR][1000 genomes]
rs1610641	0.89[EUR][1000 genomes]
rs1610642	0.89[EUR][1000 genomes]
rs1610643	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1610644	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1610645	0.86[EUR][1000 genomes]
rs1610646	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1610647	0.86[EUR][1000 genomes]
rs1610663	0.86[EUR][1000 genomes]
rs1610664	0.89[EUR][1000 genomes]
rs1610668	0.84[EUR][1000 genomes]
rs1610699	0.88[EUR][1000 genomes]
rs1610709	0.80[ASN][1000 genomes]
rs1610717	0.89[EUR][1000 genomes]
rs1610718	0.86[EUR][1000 genomes]
rs1610720	0.85[EUR][1000 genomes]
rs1610722	0.89[EUR][1000 genomes]
rs1610723	0.89[EUR][1000 genomes]
rs1610724	0.89[EUR][1000 genomes]
rs1611176	0.82[EUR][1000 genomes]
rs1611196	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1611199	0.89[EUR][1000 genomes]
rs1611200	0.89[EUR][1000 genomes]
rs1611207	0.86[EUR][1000 genomes]
rs1611211	0.86[EUR][1000 genomes]
rs1611213	0.89[EUR][1000 genomes]
rs1611217	0.84[EUR][1000 genomes]
rs1611218	0.89[EUR][1000 genomes]
rs1611219	0.86[EUR][1000 genomes]
rs1611220	0.86[EUR][1000 genomes]
rs1611221	0.86[EUR][1000 genomes]
rs1611222	0.89[EUR][1000 genomes]
rs1611223	0.86[EUR][1000 genomes]
rs1611227	0.80[EUR][1000 genomes]
rs1611229	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1611233	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1611259	0.82[EUR][1000 genomes]
rs1611270	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1611271	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1611275	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1612392	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1615251	0.85[EUR][1000 genomes]
rs1615962	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1629068	0.80[ASN][1000 genomes]
rs1630062	0.81[EUR][1000 genomes]
rs1630969	0.81[ASN][1000 genomes]
rs1632977	0.88[EUR][1000 genomes]
rs1632978	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1632997	0.82[ASN][1000 genomes]
rs1633002	0.81[ASN][1000 genomes]
rs1633004	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1633006	0.82[ASN][1000 genomes]
rs1633007	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1633009	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1633011	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1633015	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1633022	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1633023	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1633024	0.85[EUR][1000 genomes]
rs1633027	0.85[EUR][1000 genomes]
rs1633029	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1633031	0.84[EUR][1000 genomes]
rs1633037	0.85[EUR][1000 genomes]
rs1633041	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1736970	0.89[EUR][1000 genomes]
rs1736983	0.83[ASN][1000 genomes]
rs1736985	0.83[ASN][1000 genomes]
rs1736986	0.82[ASN][1000 genomes]
rs1736992	0.84[ASN][1000 genomes]
rs1737000	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1737002	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1737003	0.89[EUR][1000 genomes]
rs1737004	0.88[EUR][1000 genomes]
rs1737006	0.85[EUR][1000 genomes]
rs1737009	0.86[EUR][1000 genomes]
rs1737010	0.86[EUR][1000 genomes]
rs1737011	0.86[EUR][1000 genomes]
rs1737012	0.86[EUR][1000 genomes]
rs1737013	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1737014	0.86[EUR][1000 genomes]
rs1737015	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1737017	0.83[EUR][1000 genomes]
rs1737018	0.81[EUR][1000 genomes]
rs1737021	0.85[EUR][1000 genomes]
rs1737028	0.84[EUR][1000 genomes]
rs1737032	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1737035	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1737037	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1737040	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1737041	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1737044	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1737045	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1737048	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1737050	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1737051	0.83[EUR][1000 genomes]
rs1737054	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1737056	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1737057	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1737059	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2523408	0.86[EUR][1000 genomes]
rs2735044	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28514417	0.82[ASN][1000 genomes]
rs885938	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs885939	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs885940	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9258288	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9258289	0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9258374	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv20940	chr6:29653954-29923410	Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv428475	chr6:29659525-29763392	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv428139	chr6:29659525-29892317	Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
4	nsv427749	chr6:29659525-29975144	Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
5	esv1794141	chr6:29670915-29765814	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv10809	chr6:29692573-29794119	Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
7	nsv883532	chr6:29703262-29814963	Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	esv3441842	chr6:29715749-29942950	Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
9	esv11180	chr6:29729381-29800066	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
10	esv3332677	chr6:29733187-29961463	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
11	esv3423001	chr6:29733216-29878601	Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
12	esv3475027	chr6:29733297-29922699	Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
13	esv3475028	chr6:29733297-29922699	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
14	esv3420260	chr6:29734457-29835593	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
15	esv3330285	chr6:29736281-29881328	Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
16	nsv883537	chr6:29746023-29767611	Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
17	nsv883539	chr6:29748206-29780529	Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
18	esv3396224	chr6:29754243-29888093	Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
19	nsv965702	chr6:29758408-29798943	Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
20	esv3430372	chr6:29759523-29974277	Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29760400-29764400	Weak transcription	Hela-S3	cervix
2	chr6:29761000-29761600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
3	chr6:29761000-29761600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
4	chr6:29761000-29761800	Enhancers	Pancreas	Pancrea
5	chr6:29761000-29762000	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr6:29761000-29763000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr6:29761000-29765200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr6:29761200-29762200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr6:29761200-29763800	Weak transcription	HMEC	breast
10	chr6:29761200-29763800	Weak transcription	NHEK	skin
11	chr6:29761200-29764400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr6:29761400-29761600	Bivalent Enhancer	Left Ventricle	heart
13	chr6:29761400-29763800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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