Variant report

Variant	rs17514202
Chromosome Location	chr6:119590470-119590471
allele	A/G
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: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs17442217	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17442238	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17442343	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17442478	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17442505	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17526989	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17527003	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17527153	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17536339	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17619366	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2038768	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28635805	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3798611	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56320899	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56926474	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6569064	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6911026	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6923206	0.82[YRI][hapmap]
rs6926266	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6933973	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6941142	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6941514	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73767443	0.84[AFR][1000 genomes]
rs73769010	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73769011	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73769020	0.81[AFR][1000 genomes]
rs73769050	0.81[AFR][1000 genomes]
rs7740521	1.00[EUR][1000 genomes]
rs7740969	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7743309	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7748940	1.00[CEU][hapmap];0.85[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7757386	0.81[AFR][1000 genomes]
rs7763451	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7763610	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7767940	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9481896	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9481905	0.81[AFR][1000 genomes]
rs9489640	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9489641	1.00[CEU][hapmap];0.83[LWK][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9489642	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9489643	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9489644	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9489646	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9489647	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9489648	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9489649	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9489651	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9489652	0.88[EUR][1000 genomes]
rs9489655	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9489657	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9489658	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9489659	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9489684	0.81[AFR][1000 genomes]

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:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119558800-119602000	Weak transcription	Gastric	stomach
2	chr6:119562800-119590800	Weak transcription	Fetal Muscle Leg	muscle
3	chr6:119568600-119592600	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr6:119569200-119591600	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr6:119569200-119591600	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr6:119569400-119591600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr6:119582800-119591600	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr6:119583400-119590600	Weak transcription	Lung	lung
9	chr6:119583400-119590800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr6:119583400-119591600	Weak transcription	NHDF-Ad	bronchial
11	chr6:119585600-119591000	Genic enhancers	HepG2	liver
12	chr6:119586400-119591200	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr6:119587200-119591800	Weak transcription	Primary B cells from peripheral blood	blood
14	chr6:119588200-119590600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
15	chr6:119588200-119592000	Strong transcription	Liver	Liver
16	chr6:119588600-119590600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
17	chr6:119588800-119590600	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr6:119588800-119590600	Enhancers	Primary T helper cells fromperipheralblood	blood
19	chr6:119588800-119590800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
20	chr6:119588800-119591000	Genic enhancers	K562	blood
21	chr6:119589000-119590800	Enhancers	Primary T cells fromperipheralblood	blood
22	chr6:119589000-119591400	Weak transcription	Fetal Brain Female	brain
23	chr6:119589000-119591600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr6:119589000-119591600	Weak transcription	Fetal Kidney	kidney
25	chr6:119589200-119591600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr6:119589200-119591600	Weak transcription	Fetal Lung	lung
27	chr6:119589200-119598600	Weak transcription	Colon Smooth Muscle	Colon
28	chr6:119589200-119611000	Weak transcription	Rectal Smooth Muscle	rectum
29	chr6:119589400-119591600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr6:119589600-119591000	Enhancers	Pancreas	Pancrea
31	chr6:119589800-119590800	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr6:119589800-119590800	Strong transcription	Duodenum Mucosa	Duodenum
33	chr6:119589800-119591000	Strong transcription	Fetal Intestine Large	intestine
34	chr6:119589800-119591000	Strong transcription	Fetal Intestine Small	intestine
35	chr6:119589800-119591000	Strong transcription	Thymus	Thymus
36	chr6:119589800-119591200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr6:119589800-119591600	Weak transcription	Primary T cells from cord blood	blood
38	chr6:119590000-119590600	Weak transcription	Primary hematopoietic stem cells	blood
39	chr6:119590000-119590600	Strong transcription	Placenta	Placenta
40	chr6:119590000-119590800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr6:119590000-119590800	Strong transcription	Rectal Mucosa Donor 29	rectum
42	chr6:119590000-119590800	Strong transcription	Sigmoid Colon	Sigmoid Colon
43	chr6:119590000-119591000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr6:119590000-119591200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr6:119590000-119591200	Strong transcription	Adipose Nuclei	Adipose
46	chr6:119590000-119591400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr6:119590000-119591600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
48	chr6:119590000-119591600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr6:119590200-119590600	Strong transcription	Ovary	ovary
50	chr6:119590200-119590800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links