Variant report

Variant	rs961519
Chromosome Location	chr7:147726291-147726292
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10240221	1.00[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap];0.83[YRI][hapmap]
rs10249855	0.91[YRI][hapmap]
rs10808049	0.96[CEU][hapmap];0.92[CHB][hapmap];0.93[JPT][hapmap]
rs11771941	0.85[CHB][hapmap]
rs13237695	0.80[ASN][1000 genomes]
rs1541412	0.85[CHB][hapmap];0.93[JPT][hapmap];0.89[MEX][hapmap];0.86[AMR][1000 genomes]
rs17432209	0.85[CHB][hapmap]
rs2527049	0.92[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2527051	0.96[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.86[JPT][hapmap];0.89[MEX][hapmap];0.95[TSI][hapmap];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2527054	0.82[CHB][hapmap];0.83[JPT][hapmap]
rs2707553	0.85[CHB][hapmap]
rs2707554	0.90[YRI][hapmap]
rs2707560	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2707563	0.96[CEU][hapmap];0.92[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];0.86[JPT][hapmap];0.89[MEX][hapmap];0.95[TSI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2707582	0.88[TSI][hapmap]
rs2710074	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2710127	0.87[CEU][hapmap];0.83[TSI][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2710132	0.95[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2710135	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2710157	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4571659	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4725757	1.00[CEU][hapmap];0.84[CHB][hapmap];0.93[JPT][hapmap];0.83[YRI][hapmap]
rs4725758	0.92[CHB][hapmap];0.93[JPT][hapmap];0.92[YRI][hapmap];0.85[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs4726903	0.85[CHB][hapmap];0.93[JPT][hapmap];0.84[MEX][hapmap];0.85[AMR][1000 genomes]
rs4726912	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6942912	0.92[CHB][hapmap];0.84[MEX][hapmap]
rs6946207	0.90[CHB][hapmap];0.83[JPT][hapmap]
rs6949561	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6953539	0.85[CHB][hapmap];0.87[JPT][hapmap];0.84[MEX][hapmap];0.82[AMR][1000 genomes]
rs6969904	0.92[CHB][hapmap];0.93[JPT][hapmap];0.92[YRI][hapmap];0.86[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs6970083	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs757696	0.96[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8180832	0.82[CHB][hapmap]
rs993715	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][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	nsv1023913	chr7:147521075-147806318	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1026058	chr7:147521109-147783042	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv539179	chr7:147521109-147783042	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv934002	chr7:147521110-147807705	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1017610	chr7:147523752-147806427	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs961519	CRYGN	cis	parietal	SCAN
rs961519	OR2A12	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:147726200-147726400	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
2	chr7:147726200-147726600	Enhancers	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links