Variant report

Variant	rs9342961
Chromosome Location	chr6:73356819-73356820
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:73121689..73122492-chr6:73356661..73357423,2	K562	blood:

Extended variants
information (count: 98 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs10080760	0.85[CEU][hapmap];0.81[TSI][hapmap];0.82[EUR][1000 genomes]
rs10805964	0.84[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10943042	0.91[CHB][hapmap];0.98[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.97[MKK][hapmap];0.80[YRI][hapmap];0.99[ASN][1000 genomes]
rs10943044	0.91[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs10943046	0.97[ASN][1000 genomes]
rs12111265	0.90[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12175038	0.91[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs12523691	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12528674	0.99[ASN][1000 genomes]
rs12661650	0.81[ASN][1000 genomes]
rs13213217	0.99[ASN][1000 genomes]
rs1410764	0.90[YRI][hapmap]
rs1543621	0.91[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.98[ASN][1000 genomes]
rs16882711	0.85[CHB][hapmap];0.87[JPT][hapmap]
rs17692121	0.91[CHB][hapmap];0.98[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.97[MKK][hapmap];0.80[YRI][hapmap];0.99[ASN][1000 genomes]
rs1884090	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1997914	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs2207265	0.81[CHB][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.81[EUR][1000 genomes]
rs2207266	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs2207267	0.85[CHB][hapmap];0.84[JPT][hapmap]
rs3734212	0.94[ASN][1000 genomes]
rs3936157	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4706511	0.95[CHB][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs4707978	0.81[CHB][hapmap];0.87[JPT][hapmap];0.89[ASN][1000 genomes]
rs4707980	0.86[CHB][hapmap];0.83[JPT][hapmap];0.86[ASN][1000 genomes]
rs4707981	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4707983	0.88[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4707984	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4707985	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs6453598	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs6453599	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs6453600	0.86[CHB][hapmap];0.89[CHD][hapmap];0.86[JPT][hapmap]
rs67895524	0.87[ASN][1000 genomes]
rs68141942	0.85[ASN][1000 genomes]
rs6899573	0.99[ASN][1000 genomes]
rs6900054	0.89[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs6900100	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs6906977	0.85[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6910780	0.86[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap]
rs6913237	0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs6915647	0.90[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6917707	0.81[CHB][hapmap];0.87[JPT][hapmap];0.89[ASN][1000 genomes]
rs6922044	0.81[CHB][hapmap];0.91[CHD][hapmap];0.87[JPT][hapmap];0.89[ASN][1000 genomes]
rs6922327	0.81[ASN][1000 genomes]
rs6922479	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs6922837	0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs6923028	0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs6926943	0.86[CHB][hapmap];0.88[CHD][hapmap];0.87[JPT][hapmap];0.87[ASN][1000 genomes]
rs6931363	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs6937158	0.91[CHB][hapmap];0.98[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs6937341	0.90[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs7451091	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs769133	0.91[CHB][hapmap];0.86[JPT][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7742742	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7749079	0.81[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs7749264	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7760979	0.86[CHB][hapmap];0.86[CHD][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs7768117	0.84[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7771839	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7772714	0.86[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7772876	0.81[CHB][hapmap];0.91[JPT][hapmap]
rs7776102	0.90[CHB][hapmap];0.87[JPT][hapmap]
rs867521	0.91[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs883632	0.87[ASN][1000 genomes]
rs9293896	0.92[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9293897	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9293898	0.90[CHB][hapmap];0.87[JPT][hapmap]
rs9293899	0.86[CHB][hapmap];0.84[CHD][hapmap];0.87[JPT][hapmap]
rs9293902	0.85[CHB][hapmap];0.83[CHD][hapmap];0.85[JPT][hapmap]
rs9293904	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs9341386	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs9342962	0.91[CHB][hapmap];0.91[CHD][hapmap];0.87[JPT][hapmap];0.90[ASN][1000 genomes]
rs9342968	0.81[ASN][1000 genomes]
rs9351938	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs9360570	0.97[ASN][1000 genomes]
rs9360571	0.86[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9360572	0.91[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs9360573	0.89[ASN][1000 genomes]
rs9360580	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs9360584	0.90[CHB][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs9360587	0.90[CHB][hapmap];0.87[JPT][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9360588	0.85[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9360594	0.81[ASN][1000 genomes]
rs9442830	0.91[CHB][hapmap];0.93[CHD][hapmap];0.87[JPT][hapmap];0.90[ASN][1000 genomes]
rs9442831	0.91[CHB][hapmap];0.93[CHD][hapmap];0.87[JPT][hapmap];0.90[ASN][1000 genomes]
rs9442832	0.85[ASN][1000 genomes]
rs9442834	0.90[CHB][hapmap];0.84[CHD][hapmap];0.87[JPT][hapmap];0.85[ASN][1000 genomes]
rs9442835	0.86[CHB][hapmap];0.84[CHD][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs9442836	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9442837	0.85[CHB][hapmap];0.89[CHD][hapmap];0.91[JPT][hapmap]
rs9446734	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9446735	0.85[ASN][1000 genomes]
rs9446739	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9446740	0.81[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap]
rs993314	0.86[CHB][hapmap];0.91[CHD][hapmap];0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023809	chr6:73157813-73477997	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv538303	chr6:73157813-73477997	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	esv3347486	chr6:73283590-73445976	Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9342961	C6orf155	cis	cerebellum	SCAN
rs9342961	C6orf221	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:73334400-73358800	Weak transcription	HSMM	muscle
2	chr6:73336200-73359000	Weak transcription	Primary hematopoietic stem cells	blood
3	chr6:73336200-73362800	Weak transcription	Primary B cells from cord blood	blood
4	chr6:73338600-73358600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:73346800-73358800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr6:73352000-73358600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr6:73355000-73358600	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr6:73355200-73362200	Weak transcription	Psoas Muscle	Psoas
9	chr6:73355600-73357800	Enhancers	Muscle Satellite Cultured Cells	--
10	chr6:73356200-73357400	Enhancers	HMEC	breast
11	chr6:73356200-73357800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr6:73356200-73358000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr6:73356400-73357200	Enhancers	NHEK	skin
14	chr6:73356600-73359000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr6:73356800-73357000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr6:73356800-73357400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:73356800-73358800	Weak transcription	Osteobl	bone

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