Variant report

Variant	rs11153803
Chromosome Location	chr6:119590869-119590870
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM184A-1	chr6:119590298-119590879	NONHSAT114708

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs1022869	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1022870	1.00[ASN][1000 genomes]
rs1028327	0.93[ASN][1000 genomes]
rs1028328	0.93[ASN][1000 genomes]
rs10456921	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10457352	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10457353	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10457355	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10457356	0.81[EUR][1000 genomes]
rs10485001	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10872173	0.93[ASN][1000 genomes]
rs10872177	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11153796	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153797	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153800	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153805	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153808	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153810	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153811	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11153812	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11751945	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11755967	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11759899	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11961647	1.00[ASN][1000 genomes]
rs11962938	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12192420	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12198423	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12198667	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12200554	0.93[ASN][1000 genomes]
rs12205260	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12205826	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12206472	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12207595	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12210002	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12524617	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1295388	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17514051	0.82[EUR][1000 genomes]
rs2036257	1.00[CHB][hapmap]
rs2038769	0.84[CEU][hapmap]
rs2092218	0.93[ASN][1000 genomes]
rs2142886	0.88[EUR][1000 genomes]
rs4607463	0.93[ASN][1000 genomes]
rs55778105	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56827721	0.85[ASN][1000 genomes]
rs61094987	0.85[ASN][1000 genomes]
rs6569056	0.93[ASN][1000 genomes]
rs6569057	0.93[ASN][1000 genomes]
rs6569065	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6569066	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6569072	0.87[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6569073	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6903249	1.00[ASN][1000 genomes]
rs6909928	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6913626	1.00[ASN][1000 genomes]
rs6913654	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6915957	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6918913	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6920832	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6932241	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6932292	0.93[ASN][1000 genomes]
rs6935126	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72960631	0.88[EUR][1000 genomes]
rs72966433	0.84[AMR][1000 genomes]
rs73529045	0.93[ASN][1000 genomes]
rs73529086	0.93[ASN][1000 genomes]
rs7740993	0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7743299	0.83[EUR][1000 genomes]
rs7743824	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7750041	1.00[ASN][1000 genomes]
rs7750901	0.84[CEU][hapmap];1.00[JPT][hapmap]
rs7750941	0.84[CEU][hapmap];1.00[JPT][hapmap]
rs7753492	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7754482	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7756391	0.80[ASN][1000 genomes]
rs7760582	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7763569	0.93[ASN][1000 genomes]
rs7767198	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7770398	0.84[CEU][hapmap];1.00[JPT][hapmap]
rs7770777	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs926859	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9481900	0.84[CEU][hapmap];1.00[JPT][hapmap]
rs9489669	0.81[CEU][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025995	chr6:119407742-119709548	Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv886570	chr6:119450888-119600556	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1017507	chr6:119465981-119664949	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	esv3447598	chr6:119558591-120119384	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
5	esv3389526	chr6:119558598-120190087	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119558800-119602000	Weak transcription	Gastric	stomach
2	chr6:119568600-119592600	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr6:119569200-119591600	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr6:119569200-119591600	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr6:119569400-119591600	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr6:119582800-119591600	Weak transcription	Primary neutrophils fromperipheralblood	blood
7	chr6:119583400-119591600	Weak transcription	NHDF-Ad	bronchial
8	chr6:119585600-119591000	Genic enhancers	HepG2	liver
9	chr6:119586400-119591200	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr6:119587200-119591800	Weak transcription	Primary B cells from peripheral blood	blood
11	chr6:119588200-119592000	Strong transcription	Liver	Liver
12	chr6:119588800-119591000	Genic enhancers	K562	blood
13	chr6:119589000-119591400	Weak transcription	Fetal Brain Female	brain
14	chr6:119589000-119591600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr6:119589000-119591600	Weak transcription	Fetal Kidney	kidney
16	chr6:119589200-119591600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr6:119589200-119591600	Weak transcription	Fetal Lung	lung
18	chr6:119589200-119598600	Weak transcription	Colon Smooth Muscle	Colon
19	chr6:119589200-119611000	Weak transcription	Rectal Smooth Muscle	rectum
20	chr6:119589400-119591600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr6:119589600-119591000	Enhancers	Pancreas	Pancrea
22	chr6:119589800-119591000	Strong transcription	Fetal Intestine Large	intestine
23	chr6:119589800-119591000	Strong transcription	Fetal Intestine Small	intestine
24	chr6:119589800-119591000	Strong transcription	Thymus	Thymus
25	chr6:119589800-119591200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr6:119589800-119591600	Weak transcription	Primary T cells from cord blood	blood
27	chr6:119590000-119591000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr6:119590000-119591200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr6:119590000-119591200	Strong transcription	Adipose Nuclei	Adipose
30	chr6:119590000-119591400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr6:119590000-119591600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr6:119590000-119591600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr6:119590200-119591000	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr6:119590200-119591000	Strong transcription	Left Ventricle	heart
35	chr6:119590200-119591000	Strong transcription	Stomach Smooth Muscle	stomach
36	chr6:119590200-119591200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr6:119590200-119591200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr6:119590200-119591200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr6:119590200-119591600	Strong transcription	Primary B cells from cord blood	blood
40	chr6:119590200-119591600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr6:119590400-119591000	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr6:119590400-119591000	ZNF genes & repeats	GM12878-XiMat	blood
43	chr6:119590400-119591600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr6:119590400-119591600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr6:119590600-119591000	ZNF genes & repeats	Lung	lung
46	chr6:119590600-119591400	Strong transcription	Primary hematopoietic stem cells	blood
47	chr6:119590600-119591400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr6:119590600-119591600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
49	chr6:119590600-119591800	Weak transcription	Primary T helper cells PMA-I stimulated	--
50	chr6:119590600-119621800	Weak transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links