Variant report

Variant	rs10904362
Chromosome Location	chr10:4916285-4916286
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:4913150..4915341-chr10:4916191..4918470,2	K562	blood:

Extended variants
information (count: 113 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs10430753	0.98[ASN][1000 genomes]
rs10751990	0.86[ASN][1000 genomes]
rs1078063	0.98[ASN][1000 genomes]
rs10904354	0.98[ASN][1000 genomes]
rs10904355	0.98[ASN][1000 genomes]
rs10904358	0.98[ASN][1000 genomes]
rs10904359	0.98[ASN][1000 genomes]
rs10904360	0.98[ASN][1000 genomes]
rs10904364	0.86[ASN][1000 genomes]
rs10904367	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10904368	0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11252793	0.98[ASN][1000 genomes]
rs11252798	0.98[ASN][1000 genomes]
rs11252799	0.98[ASN][1000 genomes]
rs11252800	0.98[ASN][1000 genomes]
rs11252801	0.98[ASN][1000 genomes]
rs11252802	0.98[ASN][1000 genomes]
rs11252803	0.98[ASN][1000 genomes]
rs11252804	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs11252805	1.00[CHB][hapmap];0.98[ASN][1000 genomes]
rs11252824	0.88[CHD][hapmap]
rs11252836	0.88[JPT][hapmap]
rs11252839	0.85[JPT][hapmap]
rs11813511	0.98[ASN][1000 genomes]
rs12249166	0.88[JPT][hapmap]
rs12251296	0.88[JPT][hapmap]
rs1869218	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1869221	0.96[ASN][1000 genomes]
rs1901644	0.85[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1993181	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2123354	0.96[ASN][1000 genomes]
rs2167703	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2397981	0.94[ASN][1000 genomes]
rs2397984	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2924265	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2924267	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2961559	0.84[MKK][hapmap]
rs2961568	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2961571	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2961576	0.85[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2961578	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2961586	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2961589	0.98[ASN][1000 genomes]
rs2961591	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs2961592	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs2961596	0.88[ASN][1000 genomes]
rs3110959	0.96[ASN][1000 genomes]
rs34413015	0.98[ASN][1000 genomes]
rs34835589	0.98[ASN][1000 genomes]
rs35710579	0.98[ASN][1000 genomes]
rs4242775	0.86[ASN][1000 genomes]
rs4242776	0.86[ASN][1000 genomes]
rs4242777	0.86[ASN][1000 genomes]
rs4242778	0.86[ASN][1000 genomes]
rs4242779	0.86[ASN][1000 genomes]
rs4266965	1.00[CHB][hapmap];0.88[CHD][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes]
rs4295949	0.86[ASN][1000 genomes]
rs4304654	0.86[ASN][1000 genomes]
rs4478885	0.96[ASN][1000 genomes]
rs4488090	0.86[ASN][1000 genomes]
rs4520487	0.86[ASN][1000 genomes]
rs4534472	0.86[ASN][1000 genomes]
rs4540749	0.86[ASN][1000 genomes]
rs4543886	0.86[ASN][1000 genomes]
rs4551663	0.98[ASN][1000 genomes]
rs4880692	0.98[ASN][1000 genomes]
rs4880693	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs4880694	0.98[ASN][1000 genomes]
rs4880695	0.98[ASN][1000 genomes]
rs4880696	1.00[CHB][hapmap];0.98[ASN][1000 genomes]
rs4880697	0.98[ASN][1000 genomes]
rs4880698	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs4880700	0.86[ASN][1000 genomes]
rs4881367	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs4881368	0.86[ASN][1000 genomes]
rs55708378	0.96[ASN][1000 genomes]
rs55730798	0.98[ASN][1000 genomes]
rs55744013	0.98[ASN][1000 genomes]
rs55909699	0.98[ASN][1000 genomes]
rs55963870	0.98[ASN][1000 genomes]
rs56095721	0.98[ASN][1000 genomes]
rs56259387	0.98[ASN][1000 genomes]
rs56375548	0.98[ASN][1000 genomes]
rs7067785	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7069610	0.98[ASN][1000 genomes]
rs7076588	0.98[ASN][1000 genomes]
rs7086904	0.98[ASN][1000 genomes]
rs7089338	0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7092190	0.86[ASN][1000 genomes]
rs7094041	0.88[JPT][hapmap]
rs7095641	0.86[ASN][1000 genomes]
rs7097854	0.98[ASN][1000 genomes]
rs7358080	0.88[JPT][hapmap]
rs7894644	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7900145	0.98[ASN][1000 genomes]
rs7900816	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7906540	0.86[ASN][1000 genomes]
rs7906576	0.86[ASN][1000 genomes]
rs7910207	1.00[CHB][hapmap];0.84[JPT][hapmap];0.98[ASN][1000 genomes]
rs7910287	0.86[ASN][1000 genomes]
rs7911527	0.98[ASN][1000 genomes]
rs7918169	0.83[ASN][1000 genomes]
rs7919113	0.98[ASN][1000 genomes]
rs7920935	0.88[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894792	chr10:4832920-5498724	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv948794	chr10:4863093-5227382	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv1045155	chr10:4872239-5211318	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv1040343	chr10:4872814-5196815	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv540462	chr10:4872814-5196815	Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv869470	chr10:4878904-5203685	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
7	nsv466713	chr10:4901798-5319679	Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
8	nsv549881	chr10:4901798-5319679	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
9	nsv534685	chr10:4914018-5853324	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10904362	AKR1E2	cis	parietal	SCAN
rs10904362	AKR1E2	cis	cerebellum	SCAN
rs10904362	ANKRD16	cis	parietal	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:4892200-4917800	Weak transcription	Primary T cells from cord blood	blood
2	chr10:4893000-4925000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr10:4903400-4924800	Weak transcription	A549	lung
4	chr10:4908800-4944200	Weak transcription	Adipose Nuclei	Adipose
5	chr10:4910200-4920400	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr10:4910400-4917800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr10:4910400-4936400	Weak transcription	Left Ventricle	heart
8	chr10:4914000-4920000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr10:4914600-4920600	Strong transcription	Liver	Liver
10	chr10:4915000-4916400	ZNF genes & repeats	K562	blood
11	chr10:4915400-4919200	Strong transcription	Primary hematopoietic stem cells	blood
12	chr10:4915600-4916400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
13	chr10:4915800-4925000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr10:4915800-4943600	Weak transcription	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links