Variant report

Variant	rs3827647
Chromosome Location	chr6:106776591-106776592
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:106775261..106777423-chr6:106891472..106893784,2	MCF-7	breast:
2	chr6:106772845..106775200-chr6:106775290..106778006,2	K562	blood:
3	chr6:106764300..106766114-chr6:106776359..106779349,2	K562	blood:
4	chr6:106771243..106774907-chr6:106776575..106779628,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000057663	Chromatin interaction

Extended variants
information (count: 111 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs10484575	0.96[ASN][1000 genomes]
rs11754416	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11756379	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11756420	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11759048	0.96[ASN][1000 genomes]
rs11760170	0.96[ASN][1000 genomes]
rs11961415	0.96[ASN][1000 genomes]
rs1623780	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1624009	0.96[ASN][1000 genomes]
rs1624701	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1626224	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1626503	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1627312	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17488854	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17513225	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1766192	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1766196	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1766199	0.96[ASN][1000 genomes]
rs1766200	0.96[ASN][1000 genomes]
rs1766205	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1769962	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1769963	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1769964	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1769968	0.96[ASN][1000 genomes]
rs1769970	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1769971	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1769972	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1769974	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1769975	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1769978	0.89[ASN][1000 genomes]
rs1769981	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1832408	0.92[ASN][1000 genomes]
rs2743560	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743562	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743563	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2743564	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757132	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757133	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2763210	0.96[ASN][1000 genomes]
rs2763211	0.96[ASN][1000 genomes]
rs2763212	0.96[ASN][1000 genomes]
rs2763214	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2763215	0.96[ASN][1000 genomes]
rs2763216	0.96[ASN][1000 genomes]
rs2763217	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2763218	0.96[ASN][1000 genomes]
rs2763221	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787521	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787525	0.96[ASN][1000 genomes]
rs2787527	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787528	0.96[ASN][1000 genomes]
rs2787529	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2787530	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787531	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787535	0.96[ASN][1000 genomes]
rs2787536	0.96[ASN][1000 genomes]
rs2787538	0.96[ASN][1000 genomes]
rs2787539	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787540	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787543	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787544	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787545	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787546	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787547	0.96[ASN][1000 genomes]
rs2787548	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787549	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787551	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787552	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2787553	0.96[ASN][1000 genomes]
rs2791114	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2791116	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2853338	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2853340	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41292420	0.96[ASN][1000 genomes]
rs4310087	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4607457	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs543465	0.96[ASN][1000 genomes]
rs577707	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs595875	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs626664	0.96[ASN][1000 genomes]
rs676099	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs687709	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6920944	0.96[ASN][1000 genomes]
rs6930834	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73520690	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73522606	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73522607	0.96[ASN][1000 genomes]
rs73522610	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73522612	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73522614	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73522619	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73522625	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73522642	0.96[ASN][1000 genomes]
rs73522648	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs796707	0.96[ASN][1000 genomes]
rs960323	0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv1025900	chr6:106529777-106898421	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv1018270	chr6:106531658-106908606	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	nsv538399	chr6:106531658-106908606	Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv1035110	chr6:106557281-106802212	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	nsv538400	chr6:106557281-106802212	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
7	nsv1022855	chr6:106570926-106802072	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	nsv538401	chr6:106570926-106802072	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
9	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
10	nsv1025963	chr6:106593639-106848778	Strong transcription Bivalent Enhancer Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh 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
11	nsv1020047	chr6:106597828-106912047	Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
12	nsv970664	chr6:106635267-106887670	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
13	nsv1030367	chr6:106667748-106802072	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
14	nsv538403	chr6:106667748-106802072	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
15	nsv870375	chr6:106696090-107047892	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106774200-106777200	Weak transcription	HMEC	breast
2	chr6:106774200-106782600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:106776400-106776600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin

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