Variant report

Variant	rs1475919
Chromosome Location	chr6:102358855-102358856
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:102352732..102355186-chr6:102357901..102361862,3	K562	blood:

Extended variants
information (count: 78 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10447454	0.85[CEU][hapmap]
rs10447455	0.84[CEU][hapmap]
rs10457942	0.92[CEU][hapmap]
rs10457943	0.84[CEU][hapmap]
rs11156164	0.85[CEU][hapmap]
rs11756377	0.85[CEU][hapmap]
rs11760003	0.85[CEU][hapmap]
rs12191497	0.92[CEU][hapmap]
rs12192251	0.85[CEU][hapmap]
rs12197541	0.92[CEU][hapmap]
rs12198230	0.92[CEU][hapmap]
rs12200730	0.92[CEU][hapmap]
rs12201321	0.91[CEU][hapmap]
rs12202506	0.92[CEU][hapmap]
rs12203827	0.92[CEU][hapmap]
rs12204647	0.88[CEU][hapmap]
rs12205285	0.85[CEU][hapmap]
rs12205848	0.92[CEU][hapmap]
rs12207485	0.92[CEU][hapmap]
rs12207601	0.92[CEU][hapmap]
rs12207879	0.92[CEU][hapmap]
rs12208407	0.92[CEU][hapmap]
rs12212701	0.85[CEU][hapmap]
rs12213927	0.92[CEU][hapmap]
rs1340276	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes]
rs1340277	0.92[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.83[AMR][1000 genomes]
rs1340288	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1340290	0.92[CEU][hapmap]
rs1413970	0.88[GIH][hapmap]
rs1475920	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1475921	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1475922	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs1475923	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1475924	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1475925	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1578291	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap]
rs1578294	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]
rs17784615	0.92[CEU][hapmap]
rs17785058	0.92[CEU][hapmap]
rs1934676	0.91[CEU][hapmap]
rs1934677	0.92[CEU][hapmap]
rs1967944	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2051446	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2051449	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs2246086	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2518186	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2518187	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2518188	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2518189	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2518207	0.91[CEU][hapmap]
rs2518211	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2518214	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2518273	0.92[CEU][hapmap]
rs2518274	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2518276	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2791762	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2791763	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2791765	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2791766	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2791767	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2791774	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2791790	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2791791	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2791801	0.82[CHB][hapmap];0.83[GIH][hapmap];0.88[TSI][hapmap]
rs2791802	0.87[AMR][1000 genomes]
rs2791847	0.92[CEU][hapmap]
rs2791849	0.92[CEU][hapmap]
rs2852625	0.92[CEU][hapmap]
rs5021084	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6570999	0.88[GIH][hapmap];0.89[MEX][hapmap]
rs7772343	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.96[ASN][1000 genomes]
rs9404156	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[TSI][hapmap]
rs9498740	0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032499	chr6:102069885-102720998	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv830743	chr6:102284082-102459192	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv886465	chr6:102318339-102466397	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv886466	chr6:102327303-102432398	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv470850	chr6:102343078-102595587	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1475919	DNAJC1	trans	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:102358600-102359000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr6:102358800-102360800	Enhancers	Cortex derived primary cultured neurospheres	brain

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