Variant report

Variant	rs2171141
Chromosome Location	chr3:85177049-85177050
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs1013839	0.83[TSI][hapmap]
rs10433523	0.83[ASN][1000 genomes]
rs11127873	0.85[ASN][1000 genomes]
rs11127877	0.85[ASN][1000 genomes]
rs11127880	0.92[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11127882	0.86[YRI][hapmap]
rs11127883	0.86[CHD][hapmap]
rs12486784	0.89[CHD][hapmap]
rs12487792	0.82[YRI][hapmap]
rs12488308	0.82[CHD][hapmap]
rs13059287	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13061527	0.85[CHB][hapmap]
rs1376934	0.88[TSI][hapmap]
rs1376936	0.83[YRI][hapmap]
rs1452117	0.88[TSI][hapmap];0.81[EUR][1000 genomes]
rs1452121	0.88[TSI][hapmap]
rs1452125	0.83[EUR][1000 genomes]
rs1545926	0.85[CHB][hapmap];0.83[EUR][1000 genomes]
rs2123162	0.88[TSI][hapmap]
rs2167604	0.88[TSI][hapmap]
rs2200464	0.99[ASN][1000 genomes]
rs2220244	0.85[CHB][hapmap];0.83[EUR][1000 genomes]
rs2326225	0.85[MEX][hapmap]
rs4410457	0.85[ASN][1000 genomes]
rs4856268	0.81[EUR][1000 genomes]
rs62250629	1.00[ASN][1000 genomes]
rs6549011	0.84[ASN][1000 genomes]
rs6549012	0.84[ASN][1000 genomes]
rs6549016	0.84[EUR][1000 genomes]
rs6765011	0.84[ASN][1000 genomes]
rs6775464	1.00[ASN][1000 genomes]
rs6780644	0.89[CHD][hapmap]
rs6788656	1.00[ASN][1000 genomes]
rs6790864	0.85[CHD][hapmap];0.82[MEX][hapmap];0.85[ASN][1000 genomes]
rs6796256	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6796393	0.89[CHD][hapmap];0.85[ASN][1000 genomes]
rs6798922	0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7623714	0.85[CHB][hapmap]
rs7632628	0.94[ASW][hapmap];0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.81[LWK][hapmap];0.90[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7632909	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7635613	0.89[CHD][hapmap]
rs7636138	0.85[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs7637876	0.85[CHB][hapmap];0.89[CHD][hapmap]
rs7637886	0.83[CHD][hapmap]
rs7645049	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7646739	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs818216	0.89[CHD][hapmap]
rs9309970	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9810830	0.89[CHD][hapmap]
rs9814835	0.82[CHD][hapmap];0.82[MEX][hapmap];0.84[ASN][1000 genomes]
rs9819278	0.85[CHB][hapmap]
rs9820587	0.85[CHB][hapmap];0.89[CHD][hapmap];0.86[ASN][1000 genomes]
rs9857682	0.83[EUR][1000 genomes]
rs986132	0.88[TSI][hapmap]
rs9866167	0.86[CHD][hapmap]
rs9875381	0.85[CHB][hapmap]
rs9882148	0.89[CHD][hapmap]
rs9883252	0.85[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002058	chr3:84757044-85389876	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv3419993	chr3:85030343-85663403	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv492289	chr3:85066623-85319147	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv2753915	chr3:85071410-85624810	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
5	nsv877093	chr3:85101501-85194054	Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv590897	chr3:85122624-85187085	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv877094	chr3:85124697-85253981	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv590898	chr3:85158733-85243777	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv877095	chr3:85163167-85290434	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv877096	chr3:85163167-85366517	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv460747	chr3:85163167-85391672	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv590899	chr3:85163167-85391672	Active TSS Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv1001124	chr3:85167047-85309046	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
14	nsv590900	chr3:85177049-85265011	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85168400-85177600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr3:85169200-85198600	Weak transcription	Cortex derived primary cultured neurospheres	brain

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