Variant report

Variant	rs40063
Chromosome Location	chr5:107445849-107445850
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 97 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10040007	1.00[CHB][hapmap]
rs10045002	1.00[CHB][hapmap]
rs10055322	0.83[EUR][1000 genomes]
rs10065168	0.80[EUR][1000 genomes]
rs10070927	1.00[CHB][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10071499	1.00[CHB][hapmap]
rs158168	0.81[EUR][1000 genomes]
rs158169	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs158171	0.95[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs158174	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158176	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs158177	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158178	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158180	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs158182	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158183	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158184	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs158185	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs158187	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs171756	1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs182288	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs286740	0.95[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs286742	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286763	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs286770	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs286778	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs286796	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs286797	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286798	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286801	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286803	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs286804	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286807	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286810	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286811	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286812	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs286813	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs286814	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs286816	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs286819	1.00[ASN][1000 genomes]
rs286820	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs288174	1.00[CHB][hapmap]
rs288176	1.00[CHB][hapmap]
rs2910791	1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs2922408	1.00[CHB][hapmap];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2922417	0.82[EUR][1000 genomes]
rs2922418	0.82[EUR][1000 genomes]
rs2922421	0.82[EUR][1000 genomes]
rs2922422	0.82[EUR][1000 genomes]
rs2922425	1.00[CHB][hapmap];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2922431	1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs2922432	0.82[EUR][1000 genomes]
rs2941698	0.80[EUR][1000 genomes]
rs2966788	1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs2966793	0.81[EUR][1000 genomes]
rs2966796	0.82[EUR][1000 genomes]
rs2966800	1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs2966802	0.83[EUR][1000 genomes]
rs2966803	1.00[CHB][hapmap];0.83[EUR][1000 genomes]
rs2966804	0.82[EUR][1000 genomes]
rs2966813	0.82[EUR][1000 genomes]
rs2966814	0.82[EUR][1000 genomes]
rs2966818	0.81[EUR][1000 genomes]
rs2966820	1.00[CHB][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2966821	1.00[CHB][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2966822	0.80[EUR][1000 genomes]
rs2966823	1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs2966825	1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs2966827	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2966828	0.82[EUR][1000 genomes]
rs2966829	1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs34386	0.80[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34387	0.80[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34411	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34412	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34416	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34417	0.90[CEU][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes]
rs34418	0.90[CEU][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34425	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34426	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34429	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34430	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs40062	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs40065	0.80[CEU][hapmap];1.00[CHB][hapmap];0.89[EUR][1000 genomes]
rs40066	0.80[CEU][hapmap];1.00[CHB][hapmap];0.89[EUR][1000 genomes]
rs40072	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41130	0.89[EUR][1000 genomes]
rs4395619	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs466018	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4957551	1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs5005385	0.82[EUR][1000 genomes]
rs6594295	1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs6880727	1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs7706429	1.00[CHB][hapmap]
rs7727051	1.00[CHB][hapmap];0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882682	chr5:107213361-107458336	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv534281	chr5:107357579-107674981	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:107388400-107510800	Weak transcription	Primary B cells from cord blood	blood
2	chr5:107437800-107446000	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr5:107437800-107447600	Weak transcription	Right Atrium	heart
4	chr5:107437800-107463800	Weak transcription	Esophagus	oesophagus
5	chr5:107438400-107446000	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr5:107438400-107447600	Weak transcription	Pancreas	Pancrea
7	chr5:107438400-107448800	Weak transcription	Left Ventricle	heart
8	chr5:107440600-107450200	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr5:107441200-107455000	Weak transcription	Psoas Muscle	Psoas
10	chr5:107441800-107457400	Weak transcription	Primary hematopoietic stem cells	blood
11	chr5:107445400-107448000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr5:107445600-107447400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr5:107445600-107447600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr5:107445800-107447600	Enhancers	Cortex derived primary cultured neurospheres	brain

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