Variant report

Variant	rs56390023
Chromosome Location	chr6:149787356-149787357
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149785728..149788361-chr6:149790642..149793612,2	K562	blood:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs17085985	1.00[EUR][1000 genomes]
rs17086054	1.00[EUR][1000 genomes]
rs34024129	1.00[EUR][1000 genomes]
rs35391071	1.00[EUR][1000 genomes]
rs35507156	1.00[EUR][1000 genomes]
rs55763048	1.00[EUR][1000 genomes]
rs56126528	1.00[EUR][1000 genomes]
rs56836556	1.00[EUR][1000 genomes]
rs57234155	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57240808	1.00[EUR][1000 genomes]
rs58467138	1.00[EUR][1000 genomes]
rs59181586	1.00[EUR][1000 genomes]
rs59582367	1.00[EUR][1000 genomes]
rs60598581	1.00[EUR][1000 genomes]
rs60923183	1.00[EUR][1000 genomes]
rs6926168	1.00[EUR][1000 genomes]
rs6926360	1.00[EUR][1000 genomes]
rs6934491	1.00[EUR][1000 genomes]
rs73604793	1.00[EUR][1000 genomes]
rs73779304	1.00[EUR][1000 genomes]
rs73779305	1.00[EUR][1000 genomes]
rs73779307	1.00[EUR][1000 genomes]
rs73779311	1.00[EUR][1000 genomes]
rs73779312	1.00[EUR][1000 genomes]
rs73779313	1.00[EUR][1000 genomes]
rs73779314	1.00[EUR][1000 genomes]
rs73779330	1.00[EUR][1000 genomes]
rs73779332	1.00[AMR][1000 genomes]
rs73779333	1.00[EUR][1000 genomes]
rs73779345	1.00[EUR][1000 genomes]
rs73779346	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779354	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779366	1.00[EUR][1000 genomes]
rs73779373	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73779376	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7740647	1.00[EUR][1000 genomes]
rs7760102	1.00[EUR][1000 genomes]
rs7761612	1.00[EUR][1000 genomes]
rs935386	1.00[EUR][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	nsv530444	chr6:149654540-149848997	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv470866	chr6:149744632-149806552	Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv5533	chr6:149748047-149793072	Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv464076	chr6:149755695-149798835	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv604846	chr6:149755695-149798835	ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149772000-149788800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr6:149776200-149789600	Weak transcription	Fetal Thymus	thymus
3	chr6:149776800-149802000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr6:149780800-149793400	Weak transcription	Primary T cells from cord blood	blood
5	chr6:149781400-149788800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr6:149781400-149793800	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr6:149782200-149802000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr6:149783200-149802400	Weak transcription	Primary hematopoietic stem cells	blood
9	chr6:149783400-149788400	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr6:149783400-149789200	Genic enhancers	Primary B cells from peripheral blood	blood
11	chr6:149783800-149793400	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
12	chr6:149784400-149789600	Weak transcription	Duodenum Mucosa	Duodenum
13	chr6:149784600-149787400	Strong transcription	Fetal Intestine Small	intestine
14	chr6:149784600-149788200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr6:149785200-149792800	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
16	chr6:149785600-149788400	Weak transcription	HepG2	liver
17	chr6:149785800-149787400	Genic enhancers	Primary T helper cells PMA-I stimulated	--
18	chr6:149785800-149788200	Enhancers	Primary B cells from cord blood	blood
19	chr6:149785800-149789600	Weak transcription	Colon Smooth Muscle	Colon
20	chr6:149785800-149789600	Weak transcription	Rectal Smooth Muscle	rectum
21	chr6:149785800-149793400	Weak transcription	Hela-S3	cervix
22	chr6:149785800-149794600	Weak transcription	Gastric	stomach
23	chr6:149785800-149794800	Weak transcription	Right Atrium	heart
24	chr6:149786000-149788200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr6:149786000-149788600	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr6:149786000-149794200	Weak transcription	Colonic Mucosa	Colon
27	chr6:149786200-149788600	Weak transcription	Pancreas	Pancrea
28	chr6:149786200-149789400	Weak transcription	Stomach Smooth Muscle	stomach
29	chr6:149786200-149793400	Weak transcription	Stomach Mucosa	stomach
30	chr6:149786400-149787600	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr6:149786400-149789600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
32	chr6:149786800-149787600	Bivalent Enhancer	Fetal Muscle Leg	muscle
33	chr6:149787000-149787400	Enhancers	Primary T cells fromperipheralblood	blood
34	chr6:149787000-149787400	Enhancers	Primary hematopoietic stem cells short term culture	blood
35	chr6:149787000-149787400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
36	chr6:149787000-149787400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
37	chr6:149787000-149787600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr6:149787000-149787600	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
39	chr6:149787000-149787600	Genic enhancers	Primary mononuclear cells fromperipheralblood	Blood
40	chr6:149787000-149787600	Bivalent Enhancer	Adipose Nuclei	Adipose
41	chr6:149787000-149787600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
42	chr6:149787000-149787800	Flanking Active TSS	GM12878-XiMat	blood
43	chr6:149787000-149788000	Enhancers	Sigmoid Colon	Sigmoid Colon
44	chr6:149787000-149790000	Enhancers	Primary T helper cells fromperipheralblood	blood
45	chr6:149787200-149787400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
46	chr6:149787200-149787400	Genic enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr6:149787200-149787400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
48	chr6:149787200-149787400	ZNF genes & repeats	Lung	lung
49	chr6:149787200-149789400	Enhancers	Spleen	Spleen

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links