Variant report

Variant	rs1421167
Chromosome Location	chr3:177699022-177699023
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs1075544	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10936960	0.96[ASN][1000 genomes]
rs11919677	0.86[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs11920776	0.86[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs11922170	0.93[ASN][1000 genomes]
rs12492409	0.83[CHD][hapmap];0.86[JPT][hapmap]
rs12495203	0.88[ASN][1000 genomes]
rs12496207	0.82[ASN][1000 genomes]
rs13062823	0.86[JPT][hapmap]
rs13066104	0.96[ASN][1000 genomes]
rs13087011	0.96[ASN][1000 genomes]
rs13314585	0.96[ASN][1000 genomes]
rs1362828	0.86[ASN][1000 genomes]
rs1362829	1.00[ASN][1000 genomes]
rs1421157	0.96[ASN][1000 genomes]
rs1421158	0.96[ASN][1000 genomes]
rs1421160	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1421161	0.96[ASN][1000 genomes]
rs1421162	0.96[ASN][1000 genomes]
rs1421166	1.00[ASN][1000 genomes]
rs1421170	0.86[ASN][1000 genomes]
rs1421173	0.96[ASN][1000 genomes]
rs16828811	0.86[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap]
rs1895068	0.96[ASN][1000 genomes]
rs1895072	0.93[ASN][1000 genomes]
rs1895073	0.91[ASN][1000 genomes]
rs1895074	0.86[ASN][1000 genomes]
rs1895075	0.82[ASN][1000 genomes]
rs2160836	0.93[ASN][1000 genomes]
rs34300091	0.86[ASN][1000 genomes]
rs35751119	0.80[ASN][1000 genomes]
rs3961634	0.93[ASN][1000 genomes]
rs3978728	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs57315928	0.96[ASN][1000 genomes]
rs6769109	0.96[ASN][1000 genomes]
rs6775970	1.00[ASN][1000 genomes]
rs6776256	0.90[ASN][1000 genomes]
rs6779965	0.86[ASN][1000 genomes]
rs6783796	0.99[ASN][1000 genomes]
rs6786110	0.86[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs6804905	0.96[ASN][1000 genomes]
rs6807952	0.99[ASN][1000 genomes]
rs6808901	0.93[ASN][1000 genomes]
rs737553	0.96[ASN][1000 genomes]
rs737555	0.96[ASN][1000 genomes]
rs7619802	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs7645977	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9830203	1.00[ASN][1000 genomes]
rs9838142	0.96[ASN][1000 genomes]
rs9862300	0.96[ASN][1000 genomes]
rs9875424	0.96[ASN][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	nsv931055	chr3:177229521-177889872	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv829805	chr3:177662113-177805003	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv997975	chr3:177664921-177719623	Enhancers Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1421167	ATP11B	cis	parietal	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:177695600-177700600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr3:177695800-177699400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr3:177695800-177699600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:177696400-177699800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr3:177696800-177699400	Weak transcription	NH-A	brain
6	chr3:177697000-177699400	Weak transcription	Osteobl	bone
7	chr3:177697400-177701600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr3:177697600-177699400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr3:177697800-177699600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr3:177698000-177699200	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr3:177698000-177699400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr3:177698000-177699400	Weak transcription	HSMM	muscle
13	chr3:177698000-177699400	Weak transcription	NHDF-Ad	bronchial
14	chr3:177698000-177699800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr3:177698200-177700600	Weak transcription	Primary hematopoietic stem cells	blood
16	chr3:177698800-177699800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr3:177698800-177701400	Enhancers	NHLF	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links