Variant report

Variant	rs35324863
Chromosome Location	chr6:5240176-5240177
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:5230470..5234059-chr6:5238382..5241412,7	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PPP1R3G-1	chr6:5237941-5240729	ENSG00000251561

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs11242997	1.00[EUR][1000 genomes]
rs11242998	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11242999	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13202971	1.00[EUR][1000 genomes]
rs13203250	1.00[EUR][1000 genomes]
rs13212749	1.00[EUR][1000 genomes]
rs13213703	1.00[EUR][1000 genomes]
rs13217077	1.00[EUR][1000 genomes]
rs13219584	1.00[EUR][1000 genomes]
rs13219950	1.00[EUR][1000 genomes]
rs17133271	1.00[EUR][1000 genomes]
rs17139838	1.00[EUR][1000 genomes]
rs17139841	1.00[EUR][1000 genomes]
rs17139848	1.00[EUR][1000 genomes]
rs17139851	1.00[EUR][1000 genomes]
rs17139853	1.00[EUR][1000 genomes]
rs17139856	1.00[EUR][1000 genomes]
rs17139860	1.00[EUR][1000 genomes]
rs2503820	1.00[EUR][1000 genomes]
rs34041880	1.00[EUR][1000 genomes]
rs34110180	1.00[EUR][1000 genomes]
rs34120947	1.00[EUR][1000 genomes]
rs34146318	1.00[EUR][1000 genomes]
rs34170037	1.00[EUR][1000 genomes]
rs34211615	1.00[EUR][1000 genomes]
rs34265509	1.00[EUR][1000 genomes]
rs34421021	1.00[EUR][1000 genomes]
rs34440991	1.00[EUR][1000 genomes]
rs34449449	1.00[EUR][1000 genomes]
rs34512910	1.00[EUR][1000 genomes]
rs34711553	1.00[EUR][1000 genomes]
rs34713043	1.00[EUR][1000 genomes]
rs34903116	1.00[EUR][1000 genomes]
rs34908251	1.00[EUR][1000 genomes]
rs34968006	1.00[EUR][1000 genomes]
rs34968842	1.00[EUR][1000 genomes]
rs35039476	1.00[EUR][1000 genomes]
rs35073344	1.00[EUR][1000 genomes]
rs35218696	1.00[EUR][1000 genomes]
rs35277899	1.00[EUR][1000 genomes]
rs35525232	1.00[EUR][1000 genomes]
rs35587351	1.00[EUR][1000 genomes]
rs35864979	1.00[EUR][1000 genomes]
rs35869391	1.00[EUR][1000 genomes]
rs36007403	1.00[EUR][1000 genomes]
rs36010137	1.00[EUR][1000 genomes]
rs36018728	1.00[EUR][1000 genomes]
rs55720402	1.00[EUR][1000 genomes]
rs56034435	1.00[EUR][1000 genomes]
rs56343430	1.00[EUR][1000 genomes]
rs58508775	1.00[EUR][1000 genomes]
rs59994371	1.00[EUR][1000 genomes]
rs60890075	1.00[EUR][1000 genomes]
rs61089858	1.00[EUR][1000 genomes]
rs6901286	1.00[EUR][1000 genomes]
rs6921627	1.00[EUR][1000 genomes]
rs6935667	1.00[EUR][1000 genomes]
rs6935687	1.00[EUR][1000 genomes]
rs71555883	1.00[EUR][1000 genomes]
rs71555885	1.00[EUR][1000 genomes]
rs71555886	1.00[EUR][1000 genomes]
rs71557549	1.00[EUR][1000 genomes]
rs71557550	1.00[EUR][1000 genomes]
rs71557551	1.00[EUR][1000 genomes]
rs73718006	1.00[EUR][1000 genomes]
rs73718008	1.00[EUR][1000 genomes]
rs73718010	1.00[EUR][1000 genomes]
rs73718012	1.00[EUR][1000 genomes]
rs73719741	1.00[EUR][1000 genomes]
rs73719743	1.00[EUR][1000 genomes]
rs73719759	1.00[EUR][1000 genomes]
rs73719775	1.00[EUR][1000 genomes]
rs73719776	1.00[EUR][1000 genomes]
rs7744301	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023527	chr6:4729592-5387176	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv600872	chr6:4975313-5342190	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1031837	chr6:4996667-5418726	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
4	nsv1034681	chr6:5070351-5387176	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	15 gene(s)	inside rSNPs	diseases
5	nsv538113	chr6:5070351-5387176	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	15 gene(s)	inside rSNPs	diseases
6	nsv1018152	chr6:5077025-5387176	Flanking Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
7	nsv600873	chr6:5089278-5400658	Enhancers Active TSS Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
8	nsv1030254	chr6:5132261-5431585	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
9	nsv1034463	chr6:5137959-5345678	Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	10 gene(s)	inside rSNPs	diseases
10	nsv1021646	chr6:5157795-5367254	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
11	nsv538115	chr6:5157795-5367254	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
12	nsv1029609	chr6:5187633-5397254	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
13	nsv1035080	chr6:5206533-5396019	Weak transcription Enhancers Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
14	nsv538116	chr6:5206533-5396019	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
15	nsv1016456	chr6:5216835-5315913	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
16	nsv538117	chr6:5216835-5315913	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
17	nsv1019428	chr6:5216835-5627839	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
18	nsv538118	chr6:5216835-5627839	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5206200-5246800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr6:5206600-5240800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr6:5208200-5259800	Weak transcription	Primary B cells from peripheral blood	blood
4	chr6:5214600-5241000	Weak transcription	Brain Germinal Matrix	brain
5	chr6:5214600-5248800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:5214800-5248800	Weak transcription	A549	lung
7	chr6:5215000-5241400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr6:5215000-5244800	Weak transcription	Gastric	stomach
9	chr6:5215000-5252600	Weak transcription	Stomach Smooth Muscle	stomach
10	chr6:5215000-5257400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:5215000-5259800	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr6:5215200-5244800	Weak transcription	Left Ventricle	heart
13	chr6:5215200-5244800	Weak transcription	Right Ventricle	heart
14	chr6:5215400-5259800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr6:5215600-5251600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr6:5215600-5254600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:5215600-5259800	Weak transcription	NHDF-Ad	bronchial
18	chr6:5215800-5251200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr6:5216000-5240200	Weak transcription	Primary hematopoietic stem cells	blood
20	chr6:5216200-5241200	Weak transcription	Primary T helper cells fromperipheralblood	blood
21	chr6:5216200-5251400	Weak transcription	Fetal Brain Female	brain
22	chr6:5216400-5259600	Weak transcription	Primary T helper cells PMA-I stimulated	--
23	chr6:5216600-5244800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr6:5216600-5259600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr6:5220000-5245600	Weak transcription	HMEC	breast
26	chr6:5220200-5240600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr6:5220400-5240200	Weak transcription	Fetal Kidney	kidney
28	chr6:5220800-5259600	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr6:5222400-5253800	Weak transcription	Dnd41	blood
30	chr6:5222800-5244800	Weak transcription	Primary B cells from cord blood	blood
31	chr6:5227800-5259800	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr6:5230000-5245800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr6:5230200-5246400	Weak transcription	Fetal Lung	lung
34	chr6:5231000-5249400	Weak transcription	HSMMtube	muscle
35	chr6:5231000-5260200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr6:5231200-5249800	Weak transcription	HSMM	muscle
37	chr6:5231400-5245600	Weak transcription	NH-A	brain
38	chr6:5231400-5250000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr6:5231600-5249200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr6:5231800-5259800	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr6:5231800-5260000	Weak transcription	NHLF	lung
42	chr6:5231800-5260200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
43	chr6:5232000-5245000	Weak transcription	K562	blood
44	chr6:5232000-5259800	Weak transcription	HUVEC	blood vessel
45	chr6:5232000-5260200	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr6:5232400-5260000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr6:5232800-5253600	Weak transcription	Psoas Muscle	Psoas
48	chr6:5233000-5245000	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr6:5233200-5241000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
50	chr6:5233200-5244800	Weak transcription	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links