Variant report

Variant	rs17084909
Chromosome Location	chr5:94907403-94907404
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	chr5:94907342..94909603-chr5:94913208..94915224,2	K562	blood:
2	chr5:94890271..94892404-chr5:94906433..94908089,2	K562	blood:

Variant related genes	Relation type
ENSG00000164291	Chromatin interaction
ENSG00000198677	Chromatin interaction

Extended variants
information (count: 137 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:134)

rs_ID	r²[population]
rs10036119	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10036691	0.94[ASN][1000 genomes]
rs10040367	0.91[ASN][1000 genomes]
rs10045714	0.91[ASN][1000 genomes]
rs10055673	0.92[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10056208	0.91[ASN][1000 genomes]
rs10056278	0.91[ASN][1000 genomes]
rs10057391	1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10057420	0.91[ASN][1000 genomes]
rs10063417	0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10064546	1.00[CEU][hapmap];0.92[JPT][hapmap]
rs10070711	0.95[ASN][1000 genomes]
rs10075022	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10077070	0.91[ASN][1000 genomes]
rs10223061	0.89[ASN][1000 genomes]
rs10223134	0.91[ASN][1000 genomes]
rs10223147	0.91[ASN][1000 genomes]
rs10476648	0.91[ASN][1000 genomes]
rs10476649	0.91[ASN][1000 genomes]
rs10476652	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10476653	0.94[ASN][1000 genomes]
rs10476654	0.94[ASN][1000 genomes]
rs10491246	0.92[JPT][hapmap];0.91[ASN][1000 genomes]
rs10515228	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1062073	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1062075	0.88[ASN][1000 genomes]
rs1062077	0.88[ASN][1000 genomes]
rs1062083	0.88[ASN][1000 genomes]
rs10866765	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11135426	0.91[ASN][1000 genomes]
rs11135429	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1139111	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1139114	0.91[ASN][1000 genomes]
rs11948407	0.91[ASN][1000 genomes]
rs11948489	0.95[ASN][1000 genomes]
rs11949044	0.91[ASN][1000 genomes]
rs11950190	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11953160	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11953633	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11958720	0.92[ASN][1000 genomes]
rs11959401	0.92[ASN][1000 genomes]
rs12054689	0.91[ASN][1000 genomes]
rs12054916	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12055264	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12189111	0.95[ASN][1000 genomes]
rs13355280	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17084769	0.91[ASN][1000 genomes]
rs17084779	0.91[ASN][1000 genomes]
rs17084816	0.91[ASN][1000 genomes]
rs17084817	0.91[ASN][1000 genomes]
rs17084839	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs17084852	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs17084867	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs17084873	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs17084904	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs17084927	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17084933	0.82[EUR][1000 genomes]
rs2042871	0.91[ASN][1000 genomes]
rs2278224	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2303649	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2303650	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs28376538	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28491117	0.83[ASN][1000 genomes]
rs3776875	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs3776876	0.91[ASN][1000 genomes]
rs3822616	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs3822617	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3822618	0.88[ASN][1000 genomes]
rs3849752	0.91[ASN][1000 genomes]
rs3849753	0.88[ASN][1000 genomes]
rs3849754	0.91[ASN][1000 genomes]
rs3849755	0.91[ASN][1000 genomes]
rs3931769	0.91[ASN][1000 genomes]
rs55679859	0.91[ASN][1000 genomes]
rs58373522	0.95[ASN][1000 genomes]
rs58405178	0.89[ASN][1000 genomes]
rs60954465	0.92[ASN][1000 genomes]
rs62365862	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6556874	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6556876	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6859731	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6866194	1.00[CHB][hapmap];0.92[JPT][hapmap];0.95[ASN][1000 genomes]
rs6878974	1.00[CHB][hapmap];0.92[JPT][hapmap];0.92[ASN][1000 genomes]
rs6880676	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6881618	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs6891486	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6897586	0.94[ASN][1000 genomes]
rs73141954	0.83[ASN][1000 genomes]
rs73143969	0.91[ASN][1000 genomes]
rs73143972	0.85[ASN][1000 genomes]
rs73143974	0.91[ASN][1000 genomes]
rs73145973	0.88[ASN][1000 genomes]
rs73145974	0.91[ASN][1000 genomes]
rs73145991	0.91[ASN][1000 genomes]
rs73777201	0.92[ASN][1000 genomes]
rs73777219	0.95[ASN][1000 genomes]
rs73777221	0.95[ASN][1000 genomes]
rs73778853	0.91[ASN][1000 genomes]
rs7703285	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7703948	0.91[ASN][1000 genomes]
rs7705862	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7706837	0.91[ASN][1000 genomes]
rs7707851	0.91[ASN][1000 genomes]
rs7707854	0.91[ASN][1000 genomes]
rs7709709	0.92[ASN][1000 genomes]
rs7709828	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7710228	0.88[CHB][hapmap];0.92[JPT][hapmap];0.83[ASN][1000 genomes]
rs7715350	0.92[ASN][1000 genomes]
rs7722225	1.00[CEU][hapmap];0.88[CHB][hapmap];0.92[JPT][hapmap];0.87[ASN][1000 genomes]
rs7722969	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7723951	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7724147	0.91[ASN][1000 genomes]
rs7724683	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7724730	0.91[ASN][1000 genomes]
rs7725190	0.91[ASN][1000 genomes]
rs7725219	0.91[ASN][1000 genomes]
rs7725419	0.87[ASN][1000 genomes]
rs7727453	0.91[ASN][1000 genomes]
rs7727455	0.88[ASN][1000 genomes]
rs7727608	0.89[ASN][1000 genomes]
rs7733476	0.91[ASN][1000 genomes]
rs7737266	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs890739	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9285017	0.91[ASN][1000 genomes]
rs9314142	0.91[ASN][1000 genomes]
rs9314143	0.91[ASN][1000 genomes]
rs9314144	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9314145	0.91[ASN][1000 genomes]
rs9314146	0.91[ASN][1000 genomes]
rs9314147	0.91[ASN][1000 genomes]
rs9885158	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9885192	0.91[ASN][1000 genomes]
rs9885291	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9885310	0.91[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	nsv882388	chr5:94764006-94925849	Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv830408	chr5:94894032-94915995	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv598955	chr5:94903453-95136019	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:94892200-94934400	Weak transcription	Fetal Stomach	stomach
2	chr5:94892200-94936600	Weak transcription	Fetal Lung	lung
3	chr5:94892400-94907600	Weak transcription	Colon Smooth Muscle	Colon
4	chr5:94892400-94908800	Weak transcription	HepG2	liver
5	chr5:94892400-94910200	Weak transcription	Duodenum Mucosa	Duodenum
6	chr5:94892400-94911200	Weak transcription	HMEC	breast
7	chr5:94892400-94921000	Weak transcription	Psoas Muscle	Psoas
8	chr5:94892400-94922400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr5:94892400-94926000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr5:94892400-94926200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr5:94892400-94926200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr5:94892400-94926200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr5:94892400-94926600	Weak transcription	NH-A	brain
14	chr5:94892400-94937200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr5:94892600-94907800	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr5:94894000-94908400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr5:94894000-94919000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
18	chr5:94898200-94926000	Weak transcription	Thymus	Thymus
19	chr5:94900200-94908000	Weak transcription	Placenta	Placenta
20	chr5:94900400-94910200	Weak transcription	Spleen	Spleen
21	chr5:94900400-94942400	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr5:94900600-94913200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr5:94900600-94919600	Weak transcription	K562	blood
24	chr5:94900600-94921200	Weak transcription	Pancreas	Pancrea
25	chr5:94901000-94916400	Weak transcription	Fetal Brain Male	brain
26	chr5:94901400-94910200	Weak transcription	HSMM	muscle
27	chr5:94901600-94926400	Weak transcription	HUVEC	blood vessel
28	chr5:94901800-94909600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr5:94902000-94925800	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr5:94902000-94936600	Weak transcription	HSMMtube	muscle
31	chr5:94903200-94911800	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr5:94903600-94908000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr5:94903600-94909400	Weak transcription	NHLF	lung
34	chr5:94903600-94925800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr5:94903800-94910000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr5:94904000-94926800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr5:94904200-94911800	Weak transcription	Fetal Intestine Small	intestine
38	chr5:94904200-94919600	Weak transcription	Fetal Heart	heart
39	chr5:94904600-94907600	Weak transcription	Osteobl	bone
40	chr5:94904600-94926200	Weak transcription	GM12878-XiMat	blood
41	chr5:94904600-94936600	Weak transcription	Adipose Nuclei	Adipose
42	chr5:94904600-94939400	Weak transcription	Primary B cells from peripheral blood	blood
43	chr5:94904800-94908400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr5:94904800-94926400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr5:94904800-94926600	Weak transcription	Left Ventricle	heart
46	chr5:94904800-94931600	Weak transcription	Liver	Liver
47	chr5:94905000-94908200	Weak transcription	Fetal Muscle Trunk	muscle
48	chr5:94905000-94912600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr5:94905000-94925800	Weak transcription	Dnd41	blood
50	chr5:94905000-94926000	Weak transcription	Primary T helper cells PMA-I stimulated	--

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