Variant report

Variant	rs9458827
Chromosome Location	chr6:163862015-163862016
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:163852487..163854281-chr6:163861213..163863145,2	K562	blood:
2	chr6:163834856..163837715-chr6:163860062..163862807,3	K562	blood:
3	chr6:163833543..163837266-chr6:163857952..163863749,8	K562	blood:
4	chr6:163860977..163864792-chr6:163871306..163876031,5	K562	blood:
5	chr6:163860459..163862535-chr6:163862802..163865105,2	K562	blood:

Variant related genes	Relation type
ENSG00000270419	Chromatin interaction
ENSG00000112531	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10080505	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12523713	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12523978	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17176494	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4112651	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60332904	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6455905	0.94[EUR][1000 genomes]
rs6901592	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6902608	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6906081	0.90[EUR][1000 genomes]
rs6906275	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6906725	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6910323	1.00[EUR][1000 genomes]
rs6914093	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6917030	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6928869	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6936927	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6937072	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6937097	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73013516	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73013528	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73013553	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73015316	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7748261	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7759606	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7761090	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7770852	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9456868	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9458821	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9458823	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458825	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458828	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458830	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9458837	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9458849	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9458857	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9458859	0.94[EUR][1000 genomes]
rs9654569	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932127	chr6:163000261-163950870	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv534621	chr6:163731741-163950870	Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv1797109	chr6:163834147-163908115	Genic enhancers Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1019551	chr6:163842358-163965216	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1017495	chr6:163856399-163981095	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv523664	chr6:163858237-163907885	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:163840800-163865000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr6:163840800-163881400	Weak transcription	Fetal Stomach	stomach
3	chr6:163841600-163864400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:163842600-163865200	Weak transcription	Fetal Kidney	kidney
5	chr6:163843800-163862600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr6:163845400-163877800	Weak transcription	Fetal Muscle Leg	muscle
7	chr6:163847800-163862400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr6:163847800-163862600	Weak transcription	Aorta	Aorta
9	chr6:163848800-163878400	Weak transcription	Pancreas	Pancrea
10	chr6:163852000-163880000	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr6:163852200-163865200	Weak transcription	A549	lung
12	chr6:163852200-163875600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr6:163852200-163875600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr6:163853600-163862600	Weak transcription	Esophagus	oesophagus
15	chr6:163856400-163865600	Enhancers	Adipose Nuclei	Adipose
16	chr6:163857800-163862800	Weak transcription	Primary monocytes fromperipheralblood	blood
17	chr6:163858000-163863800	Enhancers	Liver	Liver
18	chr6:163858400-163862200	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr6:163858400-163864000	Enhancers	Skeletal Muscle Female	skeletal muscle
20	chr6:163858400-163876600	Weak transcription	Primary B cells from cord blood	blood
21	chr6:163858800-163865400	Enhancers	Brain Germinal Matrix	brain
22	chr6:163859000-163862800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr6:163859000-163862800	Weak transcription	Fetal Lung	lung
24	chr6:163859000-163865000	Weak transcription	Stomach Mucosa	stomach
25	chr6:163859200-163862400	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr6:163859200-163862400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr6:163859200-163862600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr6:163859200-163862600	Enhancers	Brain Inferior Temporal Lobe	brain
29	chr6:163859200-163864600	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr6:163859400-163862400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr6:163859400-163862400	Weak transcription	Monocytes-CD14+_RO01746	blood
32	chr6:163859600-163862600	Weak transcription	NHDF-Ad	bronchial
33	chr6:163859600-163862800	Weak transcription	Primary T cells from cord blood	blood
34	chr6:163859600-163865600	Enhancers	Fetal Heart	heart
35	chr6:163859600-163876600	Weak transcription	HUVEC	blood vessel
36	chr6:163859600-163878000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr6:163859800-163862200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr6:163859800-163862200	Weak transcription	Pancreatic Islets	Pancreatic Islet
39	chr6:163859800-163865000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr6:163859800-163865000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
41	chr6:163859800-163867600	Weak transcription	Rectal Smooth Muscle	rectum
42	chr6:163860200-163862200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr6:163860200-163862400	Weak transcription	Primary T helper cells fromperipheralblood	blood
44	chr6:163860200-163863400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
45	chr6:163860200-163863600	Enhancers	Brain Anterior Caudate	brain
46	chr6:163860200-163865000	Weak transcription	Ovary	ovary
47	chr6:163860200-163875400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr6:163860200-163876200	Weak transcription	HSMM	muscle
49	chr6:163860200-163876200	Weak transcription	NHLF	lung
50	chr6:163860200-163877800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links