Variant report

Variant	rs6470668
Chromosome Location	chr8:91089850-91089851
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	chr8:91089800..91091325-chr8:91092595..91094860,2	MCF-7	breast:
2	chr8:91085527..91087816-chr8:91089480..91091130,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000104327	Chromatin interaction

Extended variants
information (count: 108 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs10088826	0.85[CEU][hapmap]
rs10092098	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10104321	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1011682	0.81[CEU][hapmap]
rs1011683	0.83[MEX][hapmap]
rs10216992	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1061302	0.81[CEU][hapmap];0.91[MEX][hapmap]
rs1063045	0.81[CEU][hapmap];0.87[MEX][hapmap]
rs1063053	0.80[JPT][hapmap]
rs1063054	0.85[JPT][hapmap]
rs10755930	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10956375	0.81[CEU][hapmap]
rs10956431	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11778638	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11782032	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs11784904	0.81[ASN][1000 genomes]
rs12171665	0.85[CEU][hapmap];0.84[TSI][hapmap];0.86[EUR][1000 genomes]
rs12547667	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12549107	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12679577	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13264478	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13265193	0.90[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13275276	0.81[CEU][hapmap]
rs13278453	0.81[CEU][hapmap]
rs13312935	0.81[CEU][hapmap]
rs1800645	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1805790	0.81[CEU][hapmap]
rs1805794	0.81[CEU][hapmap];0.91[MEX][hapmap]
rs1805795	0.81[CEU][hapmap]
rs1805797	0.81[CEU][hapmap];0.87[MEX][hapmap]
rs1805799	0.81[CEU][hapmap];0.91[MEX][hapmap]
rs1805800	0.81[CEU][hapmap]
rs1805818	0.81[CEU][hapmap];0.87[MEX][hapmap]
rs1805844	0.81[CEU][hapmap]
rs1805865	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1805870	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1805876	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1805877	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1881467	0.85[JPT][hapmap]
rs1881468	0.85[JPT][hapmap]
rs2021881	0.85[JPT][hapmap]
rs2021882	0.85[JPT][hapmap]
rs2073635	0.81[CEU][hapmap];0.87[MEX][hapmap]
rs2074596	0.90[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.84[TSI][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2091887	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2091888	0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2107465	0.90[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2142093	0.90[CEU][hapmap];0.84[EUR][1000 genomes]
rs2142094	0.90[CEU][hapmap];0.84[EUR][1000 genomes]
rs2142097	0.85[JPT][hapmap]
rs2234744	0.81[CEU][hapmap];0.91[MEX][hapmap]
rs2246022	0.85[JPT][hapmap]
rs2267543	0.90[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.82[TSI][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2280780	0.81[CEU][hapmap]
rs2308962	0.81[CEU][hapmap];0.87[MEX][hapmap]
rs2339025	0.81[CEU][hapmap]
rs2697676	0.85[JPT][hapmap]
rs2735383	0.85[JPT][hapmap]
rs2735384	0.90[JPT][hapmap]
rs2735385	0.85[JPT][hapmap]
rs2735386	0.85[JPT][hapmap]
rs2735387	0.80[JPT][hapmap]
rs2735388	0.80[JPT][hapmap]
rs28380191	0.81[EUR][1000 genomes]
rs3736639	0.81[CEU][hapmap]
rs4960982	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4961166	0.85[CEU][hapmap];0.91[MEX][hapmap]
rs6470523	0.81[CEU][hapmap]
rs6470524	0.81[CEU][hapmap]
rs6470671	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6470713	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6985793	0.82[MEX][hapmap]
rs6987873	0.81[CEU][hapmap]
rs6988013	0.95[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];0.91[MEX][hapmap];0.94[TSI][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6990969	0.81[CEU][hapmap]
rs6991811	0.81[CEU][hapmap]
rs6993054	0.81[CEU][hapmap]
rs6994202	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6999227	0.86[CHB][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap]
rs7006322	0.81[CEU][hapmap]
rs7011299	0.81[CEU][hapmap]
rs7012846	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7018118	0.81[CEU][hapmap]
rs71528739	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72671845	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs741777	0.81[CEU][hapmap]
rs741778	0.90[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs7459577	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7459845	0.82[EUR][1000 genomes]
rs7459846	0.90[CEU][hapmap];0.82[EUR][1000 genomes]
rs7460025	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7461859	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7463278	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7463923	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7815279	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7816839	0.90[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.84[TSI][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7821408	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7829246	0.81[CEU][hapmap]
rs926092	0.81[CEU][hapmap];0.91[MEX][hapmap]
rs9297784	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9649958	0.90[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs9650096	0.81[ASN][1000 genomes]
rs9774207	0.84[EUR][1000 genomes]
rs9792335	0.81[CEU][hapmap]
rs9995	0.85[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	nsv891183	chr8:90975550-91111193	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases
2	esv2758164	chr8:91000786-91329669	Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	esv2759628	chr8:91000786-91329669	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6470668	DECR1	cis	cerebellum	SCAN
rs6470668	CALB1	cis	cerebellum	SCAN
rs6470668	NBN	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:91057800-91093600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr8:91068000-91093200	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr8:91073400-91093600	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr8:91075000-91091000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr8:91078400-91090200	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr8:91086000-91091400	Weak transcription	Brain Anterior Caudate	brain
7	chr8:91087400-91090800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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