Variant report

Variant	rs6901155
Chromosome Location	chr6:39500579-39500580
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 88 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs11754808	0.91[MEX][hapmap]
rs11961693	0.88[ASN][1000 genomes]
rs11962587	0.85[CHB][hapmap]
rs11964924	0.84[CHB][hapmap];0.82[ASN][1000 genomes]
rs11968279	0.84[ASN][1000 genomes]
rs11968704	0.85[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs11969059	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs12525519	0.96[YRI][hapmap];0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12528130	0.96[YRI][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12664369	0.86[JPT][hapmap]
rs13213488	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1410487	0.81[CHD][hapmap];0.83[MEX][hapmap]
rs1536700	0.82[MEX][hapmap]
rs1546910	0.95[CHB][hapmap];0.86[ASN][1000 genomes]
rs16892158	0.84[CHB][hapmap]
rs16892194	0.89[LWK][hapmap];0.95[MEX][hapmap];0.82[MKK][hapmap];0.96[YRI][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17457401	0.86[ASN][1000 genomes]
rs1927774	0.90[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap]
rs1927775	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs1952362	0.89[CHB][hapmap];0.86[CHD][hapmap];0.84[GIH][hapmap];0.86[JPT][hapmap]
rs2026670	0.84[CHB][hapmap];0.86[CHD][hapmap]
rs2038198	0.86[JPT][hapmap]
rs2073134	0.95[CHB][hapmap];0.89[CHD][hapmap];0.82[GIH][hapmap];0.83[MEX][hapmap];0.84[ASN][1000 genomes]
rs2235817	0.85[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs2273063	0.85[CHB][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs35516457	0.80[AMR][1000 genomes]
rs3736735	0.93[JPT][hapmap]
rs4446568	0.84[ASN][1000 genomes]
rs4482968	0.85[CHB][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs4482969	0.89[ASN][1000 genomes]
rs4540261	0.84[CHB][hapmap];0.81[CHD][hapmap]
rs4605875	0.83[ASN][1000 genomes]
rs4714255	0.85[CHB][hapmap]
rs4714257	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56951565	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57703896	0.88[ASN][1000 genomes]
rs58087685	0.86[ASN][1000 genomes]
rs59724542	0.84[ASN][1000 genomes]
rs6919556	0.85[CHB][hapmap];0.82[GIH][hapmap];0.83[MEX][hapmap]
rs6922624	0.83[MEX][hapmap]
rs6927837	0.91[MEX][hapmap]
rs6928537	0.89[LWK][hapmap];0.82[YRI][hapmap];0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6930913	0.84[CHB][hapmap];0.87[CHD][hapmap];0.82[GIH][hapmap];0.83[MEX][hapmap];0.82[ASN][1000 genomes]
rs73732127	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73732153	0.81[AMR][1000 genomes]
rs7774528	0.80[YRI][hapmap]
rs9296298	0.84[CHB][hapmap];0.86[CHD][hapmap]
rs9296299	0.85[CHB][hapmap]
rs9296300	0.84[CHB][hapmap]
rs9357306	0.84[ASN][1000 genomes]
rs9357308	0.84[CHB][hapmap];0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs9357309	0.85[CHB][hapmap];0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs9367008	0.90[CHB][hapmap]
rs9367009	0.90[CHB][hapmap];0.80[ASN][1000 genomes]
rs9367012	0.84[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs9367014	0.84[CHB][hapmap];0.84[ASN][1000 genomes]
rs9367016	0.89[ASN][1000 genomes]
rs9369119	0.84[CHB][hapmap]
rs9369122	0.85[CHB][hapmap];0.82[GIH][hapmap];0.83[MEX][hapmap]
rs9369123	0.88[ASN][1000 genomes]
rs9369124	0.86[ASN][1000 genomes]
rs9380863	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs9380867	0.85[CHB][hapmap]
rs9380868	0.88[CHB][hapmap]
rs9380871	0.88[ASN][1000 genomes]
rs9380872	0.88[ASN][1000 genomes]
rs9380873	0.84[CHB][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs9380874	0.95[CHB][hapmap];0.92[CHD][hapmap];0.82[GIH][hapmap];0.83[MEX][hapmap];0.86[ASN][1000 genomes]
rs9380876	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9380877	0.93[JPT][hapmap];0.80[ASN][1000 genomes]
rs9380880	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs9394598	0.84[CHB][hapmap]
rs9394599	0.90[CHB][hapmap];0.81[CHD][hapmap]
rs9394600	0.84[CHB][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs9394601	0.88[ASN][1000 genomes]
rs9394602	0.85[CHB][hapmap];0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs9394603	0.90[ASN][1000 genomes]
rs9394606	0.85[CHB][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs9394607	0.82[ASN][1000 genomes]
rs9394608	0.93[JPT][hapmap]
rs9394609	0.93[JPT][hapmap]
rs9394610	0.81[GIH][hapmap];0.83[MEX][hapmap]
rs9394611	0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs9394614	0.86[JPT][hapmap]
rs9471123	0.80[AMR][1000 genomes]
rs9471124	0.81[AMR][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	nsv885822	chr6:39327708-39721216	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv885823	chr6:39421715-39526867	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6901155	CRIP3	cis	cerebellum	SCAN
rs6901155	C6orf226	cis	parietal	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39488600-39509400	Weak transcription	Brain Substantia Nigra	brain
2	chr6:39495200-39511000	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr6:39498400-39509400	Weak transcription	Brain Hippocampus Middle	brain
4	chr6:39498600-39510600	Weak transcription	Rectal Smooth Muscle	rectum
5	chr6:39499400-39501200	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
6	chr6:39500200-39501000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell

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