Variant report

Variant	rs10920611
Chromosome Location	chr1:190109861-190109862
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10047048	0.83[ASN][1000 genomes]
rs10218638	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10494632	1.00[CEU][hapmap];0.93[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10800937	0.83[ASN][1000 genomes]
rs10920653	0.81[JPT][hapmap];0.90[YRI][hapmap]
rs10920654	0.80[JPT][hapmap];0.89[YRI][hapmap]
rs10920655	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10920677	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs10920680	0.92[CHB][hapmap];0.94[JPT][hapmap]
rs10920692	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs12057206	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12059561	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12073139	0.93[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs12076854	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12081131	0.93[CHB][hapmap];0.95[JPT][hapmap]
rs12090879	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12093349	0.93[CHB][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs12095582	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12406050	0.85[ASN][1000 genomes]
rs12407537	0.85[ASN][1000 genomes]
rs1333319	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1333320	1.00[CEU][hapmap];0.93[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1333322	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13374608	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1342909	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1539473	1.00[CEU][hapmap];0.93[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1540513	0.93[CHB][hapmap];0.89[JPT][hapmap]
rs1557188	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1592245	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16832159	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16832178	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16832195	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16832220	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs1831784	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs1832963	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1970123	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2065557	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2095171	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2104927	0.85[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2418886	1.00[CEU][hapmap];0.93[CHB][hapmap];0.84[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2419063	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs35941447	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3762299	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs3849278	0.93[CHB][hapmap];0.89[JPT][hapmap]
rs4373764	0.93[CHB][hapmap];0.95[JPT][hapmap]
rs4399162	0.93[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs4845230	1.00[CEU][hapmap];0.93[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4845235	0.93[CHB][hapmap];0.95[JPT][hapmap]
rs60812740	0.84[ASN][1000 genomes]
rs6665930	0.83[CHB][hapmap];0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs6671234	0.93[CHB][hapmap];0.87[JPT][hapmap]
rs6674508	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs74128893	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7416623	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs7535549	0.93[CHB][hapmap];0.89[JPT][hapmap]
rs7546329	0.93[CHB][hapmap];0.89[JPT][hapmap]
rs7548837	0.93[CHB][hapmap];0.87[JPT][hapmap]
rs879963	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs954744	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv868954	chr1:189605447-190135265	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv548532	chr1:189758772-190371671	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv917005	chr1:189855484-190259380	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv832104	chr1:189990148-190186708	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv932040	chr1:190005334-190914580	Enhancers Active TSS Bivalent/Poised TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
6	nsv548549	chr1:190063211-190116362	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv548550	chr1:190064165-190116362	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv872753	chr1:190064165-190135811	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:190108800-190110600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr1:190109400-190110800	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr1:190109800-190110200	Enhancers	Brain Angular Gyrus	brain
4	chr1:190109800-190110200	Enhancers	Brain Anterior Caudate	brain
5	chr1:190109800-190110200	Enhancers	Brain Hippocampus Middle	brain

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