Variant report

Variant	rs9368524
Chromosome Location	chr6:27649763-27649764
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:27649669..27653830-chr6:27777087..27779964,4	K562	blood:
2	chr6:27635489..27641593-chr6:27648456..27655439,10	K562	blood:
3	chr6:27113145..27115239-chr6:27648858..27651457,2	K562	blood:
4	chr6:27635615..27637908-chr6:27648456..27651146,2	K562	blood:
5	chr6:27644939..27650269-chr6:27651814..27657274,7	K562	blood:
6	chr6:27572241..27575123-chr6:27648524..27650391,2	K562	blood:

Variant related genes	Relation type
ENSG00000203813	Chromatin interaction
ENSG00000184825	Chromatin interaction
ENSG00000197903	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1028311	0.90[ASW][hapmap];0.89[CEU][hapmap];0.87[CHB][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];0.88[YRI][hapmap]
rs10484400	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10946943	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1157432	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes]
rs12055685	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12173985	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12174087	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12663707	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12664599	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1555021	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16867886	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16867916	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16867921	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16867976	1.00[CHB][hapmap];0.88[JPT][hapmap];0.91[EUR][1000 genomes]
rs16867983	0.88[CEU][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];0.88[JPT][hapmap];0.83[TSI][hapmap];0.91[EUR][1000 genomes]
rs1973889	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2142704	0.89[CEU][hapmap];0.87[CHB][hapmap];0.85[CHD][hapmap];0.87[GIH][hapmap];0.94[JPT][hapmap]
rs3175123	0.93[CHB][hapmap];0.88[JPT][hapmap]
rs3800321	0.86[CHB][hapmap]
rs4711157	0.89[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap]
rs56408767	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59893892	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60096640	0.89[EUR][1000 genomes]
rs6906653	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6920044	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6934295	0.89[CEU][hapmap];0.87[CHB][hapmap];0.94[JPT][hapmap];0.88[YRI][hapmap]
rs73385147	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73385152	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73385154	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73739763	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7753236	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7763685	0.89[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];0.88[YRI][hapmap]
rs878241	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9295751	0.93[CHB][hapmap]
rs9348771	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9348777	0.87[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.91[EUR][1000 genomes]
rs9348778	0.83[EUR][1000 genomes]
rs9357043	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9357044	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9357048	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.83[TSI][hapmap];0.91[EUR][1000 genomes]
rs9368517	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9368521	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9368525	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9368526	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9379995	0.87[ASN][1000 genomes]
rs9380000	0.83[AFR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9380001	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9380005	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9380022	0.93[CHB][hapmap]
rs9380024	0.92[CHB][hapmap];0.85[JPT][hapmap]
rs9393826	0.89[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs9393832	0.89[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[ASN][1000 genomes]
rs9393835	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9393836	0.93[AFR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9393838	0.86[AFR][1000 genomes];0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9393839	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9393842	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9393843	0.89[ASN][1000 genomes]
rs9393849	0.91[EUR][1000 genomes]
rs9393852	0.95[EUR][1000 genomes]
rs9393856	0.83[EUR][1000 genomes]
rs9468157	0.89[CEU][hapmap];0.87[CHB][hapmap];0.85[CHD][hapmap];0.87[GIH][hapmap];0.94[JPT][hapmap]
rs970668	0.81[ASW][hapmap];0.89[CEU][hapmap];0.82[CHD][hapmap];0.87[GIH][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022797	chr6:27396961-27864277	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	390 gene(s)	inside rSNPs	diseases
2	nsv883510	chr6:27550712-27730064	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
3	nsv1023673	chr6:27570731-27688782	Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv830618	chr6:27593274-27789605	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	143 gene(s)	inside rSNPs	diseases
5	nsv1031337	chr6:27596676-27734884	Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
6	nsv525669	chr6:27623511-27657647	Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
7	nsv883511	chr6:27623511-27660508	Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
8	esv2830157	chr6:27634640-27657647	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
9	nsv518945	chr6:27634640-27668013	Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27646800-27649800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
2	chr6:27646800-27649800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
3	chr6:27647000-27649800	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
4	chr6:27647000-27649800	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
5	chr6:27647000-27650000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
6	chr6:27648800-27649800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:27649000-27649800	Active TSS	H9 Cell Line	embryonic stem cell
8	chr6:27649000-27650000	Active TSS	A549	lung
9	chr6:27649200-27650000	Active TSS	H1 Cell Line	embryonic stem cell
10	chr6:27649200-27650200	Weak transcription	Hela-S3	cervix
11	chr6:27649200-27652200	Weak transcription	GM12878-XiMat	blood
12	chr6:27649200-27654600	Weak transcription	NHEK	skin
13	chr6:27649200-27655000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr6:27649600-27650600	Enhancers	HepG2	liver
15	chr6:27649600-27651600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr6:27649600-27651800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr6:27649600-27651800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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