Variant report

Variant	rs11953960
Chromosome Location	chr5:35795251-35795252
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10058723	1.00[CHB][hapmap];0.95[ASN][1000 genomes]
rs10079269	0.85[ASN][1000 genomes]
rs10079517	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11567693	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11567757	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11951270	1.00[CHB][hapmap]
rs11954459	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11954524	1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11958548	1.00[CHB][hapmap];0.87[YRI][hapmap];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2277042	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2277044	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs35908401	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4346794	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4361544	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4361545	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4634378	1.00[ASN][1000 genomes]
rs56016314	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs56169453	0.85[ASN][1000 genomes]
rs56276485	0.85[ASN][1000 genomes]
rs56349002	1.00[ASN][1000 genomes]
rs57116204	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs57681685	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs58390944	1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs58522285	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs58846527	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs59217391	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60501022	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs61180877	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs61373681	0.95[ASN][1000 genomes]
rs6451224	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6860528	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6861184	0.95[ASN][1000 genomes]
rs6862072	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6875303	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6881747	1.00[CHB][hapmap]
rs73086251	0.85[ASN][1000 genomes]
rs73086255	0.85[ASN][1000 genomes]
rs73086261	0.85[ASN][1000 genomes]
rs73086281	0.85[ASN][1000 genomes]
rs73747933	0.85[ASN][1000 genomes]
rs73747964	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73747965	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73747966	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73747969	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73747970	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73747971	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73747973	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73747974	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73747976	1.00[AMR][1000 genomes]
rs73747977	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73747978	1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs73747980	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73747983	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7700501	1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7700688	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7730148	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9292611	1.00[AMR][1000 genomes];1.00[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	nsv1022761	chr5:35775802-35902546	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:35785000-35803200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr5:35788400-35796800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr5:35788800-35796800	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr5:35790800-35796800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr5:35791000-35799600	Weak transcription	Osteobl	bone
6	chr5:35791200-35797000	Weak transcription	NHDF-Ad	bronchial
7	chr5:35792200-35796800	Enhancers	Primary T killer memory cells from peripheral blood	blood
8	chr5:35792600-35797000	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr5:35792800-35796800	Enhancers	Primary T cells from cord blood	blood
10	chr5:35792800-35796800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
11	chr5:35793000-35796800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr5:35793200-35796800	Enhancers	Primary T cells fromperipheralblood	blood
13	chr5:35793200-35798600	Enhancers	Fetal Thymus	thymus
14	chr5:35793400-35797000	Enhancers	Thymus	Thymus
15	chr5:35793400-35798000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
16	chr5:35793600-35796800	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr5:35794000-35796800	Enhancers	Dnd41	blood
18	chr5:35794200-35795400	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr5:35794200-35795800	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr5:35794400-35795400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
21	chr5:35794400-35796000	Enhancers	HSMMtube	muscle
22	chr5:35794600-35795400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr5:35794600-35795400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr5:35794600-35795400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr5:35794600-35795400	Enhancers	HUES6 Cell Line	embryonic stem cell
26	chr5:35794600-35795400	Enhancers	iPS-18 Cell Line	embryonic stem cell
27	chr5:35794600-35795400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
28	chr5:35794600-35795600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr5:35794600-35795600	Enhancers	HUES64 Cell Line	embryonic stem cell
30	chr5:35794600-35796000	Enhancers	HSMM	muscle
31	chr5:35794600-35796800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr5:35794800-35796800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr5:35795200-35796800	Enhancers	Primary T helper cells PMA-I stimulated	--
34	chr5:35795200-35797200	Weak transcription	Fetal Muscle Leg	muscle
35	chr5:35795200-35802600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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