Variant report

Variant	rs4960136
Chromosome Location	chr6:5788001-5788002
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1108303	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1108304	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1125513	0.88[ASN][1000 genomes]
rs11969052	0.84[JPT][hapmap]
rs12528811	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13437141	0.86[EUR][1000 genomes]
rs17141268	0.86[ASN][1000 genomes]
rs17141289	0.89[ASN][1000 genomes]
rs17141291	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17145862	0.92[ASN][1000 genomes]
rs1815271	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4959356	0.98[ASN][1000 genomes]
rs4960132	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4960134	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4960135	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4960137	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4960138	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs55864325	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55991338	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56061157	0.86[EUR][1000 genomes]
rs60232193	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60475061	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60532879	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60625891	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6597163	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6910357	0.89[ASN][1000 genomes]
rs6914171	0.89[ASN][1000 genomes]
rs6917712	0.88[EUR][1000 genomes]
rs6919521	0.89[EUR][1000 genomes]
rs6941313	0.89[ASN][1000 genomes]
rs72821941	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7760017	0.81[TSI][hapmap]
rs7766672	0.84[EUR][1000 genomes]
rs9504511	0.86[ASN][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	nsv970669	chr6:5783028-5791204	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv981101	chr6:5787642-5788880	Enhancers Weak transcription Bivalent Enhancer	lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4960136	SSR1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5782200-5788200	Enhancers	Fetal Thymus	thymus
2	chr6:5783800-5794600	Weak transcription	Psoas Muscle	Psoas
3	chr6:5787000-5789200	Enhancers	Fetal Muscle Leg	muscle
4	chr6:5787400-5793000	Weak transcription	Fetal Brain Female	brain
5	chr6:5787800-5791600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr6:5787800-5803800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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