Variant report

Variant	rs1501560
Chromosome Location	chr1:211113791-211113792
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10494931	0.82[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10494932	0.82[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11119658	0.82[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs11119664	0.82[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs11578692	0.90[ASN][1000 genomes]
rs11579078	0.90[ASN][1000 genomes]
rs11582440	0.92[ASN][1000 genomes]
rs11582507	0.82[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11583101	0.82[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11588573	0.84[ASN][1000 genomes]
rs12074568	0.84[ASN][1000 genomes]
rs12121565	0.82[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12731316	0.83[LWK][hapmap];1.00[YRI][hapmap]
rs12750762	0.90[ASN][1000 genomes]
rs12751504	0.94[ASN][1000 genomes]
rs12752336	0.94[ASN][1000 genomes]
rs12756697	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12760791	0.82[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1393028	0.82[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1501558	0.82[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1538287	0.84[JPT][hapmap]
rs1572646	0.84[JPT][hapmap]
rs17017226	0.84[JPT][hapmap]
rs17188741	0.98[ASN][1000 genomes]
rs17188748	0.82[CHB][hapmap];0.85[JPT][hapmap];0.98[ASN][1000 genomes]
rs17188797	0.92[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2134108	0.96[ASN][1000 genomes]
rs2221250	0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs33985151	0.82[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs34773128	0.96[ASN][1000 genomes]
rs34827659	0.98[ASN][1000 genomes]
rs35019263	0.84[ASN][1000 genomes]
rs3828021	0.84[JPT][hapmap]
rs4262610	0.80[ASN][1000 genomes]
rs4638187	0.90[ASN][1000 genomes]
rs59374111	0.82[ASN][1000 genomes]
rs61850226	0.86[ASN][1000 genomes]
rs6540658	0.84[JPT][hapmap]
rs6669706	0.84[JPT][hapmap]
rs6683856	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6697578	0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6702598	0.90[ASN][1000 genomes]
rs7414286	0.90[ASN][1000 genomes]
rs7519090	0.86[ASN][1000 genomes]
rs867849	0.84[JPT][hapmap]
rs868963	0.84[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9662051	0.98[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873154	chr1:211057697-211117197	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1501560	HSD11B1	cis	parietal	SCAN
rs1501560	IKBKE	cis	cerebellum	SCAN
rs1501560	SERTAD4	cis	cerebellum	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:211108600-211117400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr1:211112200-211124000	Weak transcription	HSMMtube	muscle
3	chr1:211112400-211120000	Weak transcription	HSMM	muscle
4	chr1:211112600-211114600	Enhancers	Primary T cells from cord blood	blood
5	chr1:211112800-211124800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr1:211113400-211114000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
7	chr1:211113600-211114000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr1:211113600-211114200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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