Variant report

Variant	rs1150690
Chromosome Location	chr6:28165298-28165299
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:28163458..28166230-chr6:28188324..28191413,3	K562	blood:
2	chr6:28139078..28141804-chr6:28165060..28166721,2	K562	blood:
3	chr6:28164945..28167358-chr6:28168626..28171324,2	MCF-7	breast:
4	chr6:28163918..28166316-chr6:28322648..28324449,2	K562	blood:

Variant related genes	Relation type
ENSG00000235109	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 15 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1150668	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1150670	0.92[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1150679	0.92[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1150686	0.93[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1150694	0.94[ASN][1000 genomes]
rs1150707	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs1150709	0.83[AMR][1000 genomes]
rs1150716	0.87[AMR][1000 genomes]
rs1225618	0.91[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1225710	0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1225715	0.91[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1233713	0.87[AMR][1000 genomes]
rs149956	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs149963	0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1654774	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1736891	0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs1997660	0.81[AMR][1000 genomes]
rs2021826	0.92[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs203869	0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs203878	0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs213240	0.80[AMR][1000 genomes]
rs2142730	0.87[AMR][1000 genomes]
rs2622322	0.91[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2791333	0.92[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2859348	0.81[AFR][1000 genomes]
rs4713158	0.81[AMR][1000 genomes]
rs7206	0.83[AMR][1000 genomes]
rs853683	0.81[AMR][1000 genomes]
rs853684	0.87[AMR][1000 genomes]
rs853690	0.81[AMR][1000 genomes]
rs853693	0.81[AMR][1000 genomes]
rs9301	0.87[AMR][1000 genomes]
rs9468333	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883514	chr6:28155418-28185726	Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv883515	chr6:28156476-28181675	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv883516	chr6:28156476-28185726	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

mRNA abundance (count:15)

SNP	Gene	Cis/trans	Tissue	Source
rs1150690	ZSCAN31	cis	Thyroid	GTEx
rs1150690	RP5-874C20.3	cis	Nerve Tibial	GTEx
rs1150690	ZSCAN31	cis	lung	GTEx
rs1150690	AL022393.7	cis	lung	GTEx
rs1150690	ZSCAN23	cis	Artery Tibial	GTEx
rs1150690	AL022393.7	cis	Esophagus Muscularis	GTEx
rs1150690	AL022393.7	cis	Artery Tibial	GTEx
rs1150690	RP5-874C20.3	cis	Thyroid	GTEx
rs1150690	AL022393.7	cis	Heart Left Ventricle	GTEx
rs1150690	AL022393.7	cis	Muscle Skeletal	GTEx
rs1150690	ZSCAN31	cis	Esophagus Muscularis	GTEx
rs1150690	ZSCAN12	Cis_1M	lymphoblastoid	RTeQTL
rs1150690	AL022393.7	cis	Artery Aorta	GTEx
rs1150690	ZSCAN23	cis	Muscle Skeletal	GTEx
rs1150690	AL022393.7	cis	Nerve Tibial	GTEx

Chromatin state (count:0 , 50 per page) page:

No data

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links