Variant report

Variant	rs9258176
Chromosome Location	chr6:29690228-29690229
allele	C/G
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	ZNF384	chr6:29690199-29690547	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:29689319..29693460-chr6:29694038..29698697,5	MCF-7	breast:
2	chr6:29689852..29692667-chr6:31324164..31326641,2	K562	blood:

Variant related genes	Relation type
HLA-F	TF binding region
ENSG00000239257	Chromatin interaction
ENSG00000271581	Chromatin interaction
ENSG00000234745	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs2072894	0.80[ASN][1000 genomes]
rs2072896	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2075682	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2076174	0.80[ASN][1000 genomes]
rs2272874	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3734813	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3734815	0.82[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs3736694	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3736697	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3757324	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3757325	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3757326	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3817826	0.86[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs6901686	0.80[ASN][1000 genomes]
rs6910733	0.83[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs7738786	0.80[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs7739360	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7739388	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7741597	0.87[ASN][1000 genomes]
rs7742523	0.88[ASN][1000 genomes]
rs7751815	0.85[ASN][1000 genomes]
rs7753946	0.89[ASN][1000 genomes]
rs7754692	0.86[ASN][1000 genomes]
rs7755571	0.87[ASN][1000 genomes]
rs7759272	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7773358	0.87[ASN][1000 genomes]
rs9258156	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9258158	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9258160	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9258163	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9258164	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9258166	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9258167	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9258168	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9258169	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9258170	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9258171	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9258172	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9258173	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9258174	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9258175	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9258187	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9258192	0.80[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs9258203	0.86[ASN][1000 genomes]
rs9258205	0.85[ASN][1000 genomes]
rs9258207	0.85[ASN][1000 genomes]
rs9258211	0.85[ASN][1000 genomes]
rs9258212	0.85[ASN][1000 genomes]
rs9258214	0.85[ASN][1000 genomes]
rs9258215	0.85[ASN][1000 genomes]
rs9258216	0.84[ASN][1000 genomes]
rs9258218	0.85[ASN][1000 genomes]
rs9258225	0.80[ASN][1000 genomes]
rs9258230	0.80[ASN][1000 genomes]
rs9258236	0.80[ASN][1000 genomes]
rs9258242	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 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	nsv970675	chr6:29657036-29692268	Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Enhancers Weak transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	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
4	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
5	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
6	nsv508397	chr6:29663132-29761448	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Transcr. at gene 5' and 3' Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
7	esv1821077	chr6:29670915-29726207	Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
8	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
9	nsv462673	chr6:29689590-29700183	Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
10	nsv601230	chr6:29689590-29700183	Flanking Active TSS Active TSS Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29664000-29690600	Weak transcription	Right Atrium	heart
2	chr6:29688200-29690400	Enhancers	Primary T cells fromperipheralblood	blood
3	chr6:29688400-29690400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
4	chr6:29688600-29690800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:29689200-29690400	Enhancers	Primary B cells from peripheral blood	blood
6	chr6:29689200-29690400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
7	chr6:29689200-29690400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
8	chr6:29689400-29690800	Weak transcription	Spleen	Spleen
9	chr6:29689600-29690400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr6:29689600-29690600	Enhancers	Primary B cells from cord blood	blood
11	chr6:29690000-29690400	Weak transcription	Primary T cells from cord blood	blood
12	chr6:29690000-29690600	Weak transcription	Primary monocytes fromperipheralblood	blood
13	chr6:29690000-29690600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr6:29690000-29691200	Active TSS	Primary T helper naive cells fromperipheralblood	blood
15	chr6:29690000-29692000	Active TSS	Primary T helper naive cells from peripheral blood	blood
16	chr6:29690000-29692000	Active TSS	Primary T helper cells PMA-I stimulated	--
17	chr6:29690000-29692200	Active TSS	GM12878-XiMat	blood
18	chr6:29690200-29690400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr6:29690200-29690400	Weak transcription	Duodenum Mucosa	Duodenum
20	chr6:29690200-29690600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr6:29690200-29690600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr6:29690200-29690600	Active TSS	Monocytes-CD14+_RO01746	blood
23	chr6:29690200-29690800	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
24	chr6:29690200-29691200	Active TSS	Primary T regulatory cells fromperipheralblood	blood
25	chr6:29690200-29692000	Active TSS	Primary T killer naive cells fromperipheralblood	blood

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