Variant report

Variant	rs4838592
Chromosome Location	chr10:49661665-49661666
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:49607978..49609733-chr10:49660029..49662465,2	K562	blood:
2	chr10:49659900..49662821-chr10:49704182..49706648,2	K562	blood:
3	chr10:49660046..49662024-chr10:49725429..49726985,2	K562	blood:
4	chr10:49649966..49652141-chr10:49661563..49663221,2	K562	blood:
5	chr10:49647174..49649169-chr10:49659703..49661995,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000107643	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10745273	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11101327	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12262288	1.00[JPT][hapmap]
rs1465605	1.00[JPT][hapmap]
rs1652245	1.00[JPT][hapmap]
rs17009533	1.00[JPT][hapmap]
rs17010496	0.85[TSI][hapmap]
rs1730444	1.00[JPT][hapmap]
rs1730446	1.00[JPT][hapmap]
rs1881733	1.00[JPT][hapmap]
rs1881734	1.00[JPT][hapmap]
rs2455321	1.00[JPT][hapmap]
rs2652408	1.00[JPT][hapmap]
rs2698764	1.00[JPT][hapmap]
rs280605	1.00[JPT][hapmap]
rs280606	1.00[JPT][hapmap]
rs3855904	0.82[EUR][1000 genomes]
rs399419	1.00[JPT][hapmap]
rs413065	1.00[JPT][hapmap]
rs61838722	0.85[EUR][1000 genomes]
rs61838723	0.85[EUR][1000 genomes]
rs7073154	1.00[JPT][hapmap]
rs7092085	1.00[CHB][hapmap]
rs7092959	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];0.97[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]
rs7915333	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv895372	chr10:49576878-49933488	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49612000-49664200	Weak transcription	Thymus	Thymus
2	chr10:49619000-49664200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr10:49621400-49664400	Weak transcription	Brain Angular Gyrus	brain
4	chr10:49624600-49664800	Weak transcription	Gastric	stomach
5	chr10:49626600-49664400	Weak transcription	Spleen	Spleen
6	chr10:49644200-49664400	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr10:49647800-49663000	Weak transcription	NHEK	skin
8	chr10:49647800-49664400	Weak transcription	Fetal Intestine Small	intestine
9	chr10:49648000-49664400	Weak transcription	Right Atrium	heart
10	chr10:49650600-49664000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr10:49652000-49673000	Weak transcription	HMEC	breast
12	chr10:49652600-49664200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr10:49653000-49673600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr10:49653200-49662400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr10:49653200-49663600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr10:49653600-49662400	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr10:49653600-49664400	Weak transcription	Esophagus	oesophagus
18	chr10:49653600-49664600	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr10:49655200-49677800	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr10:49656000-49661800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr10:49656600-49662200	Strong transcription	Primary hematopoietic stem cells	blood
22	chr10:49656800-49662000	Strong transcription	Fetal Stomach	stomach
23	chr10:49657600-49662000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
24	chr10:49657600-49662600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr10:49657800-49662200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr10:49657800-49664400	Strong transcription	NHLF	lung
27	chr10:49657800-49677600	Weak transcription	HSMMtube	muscle
28	chr10:49658000-49661800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr10:49658000-49664400	Weak transcription	Brain Cingulate Gyrus	brain
30	chr10:49658200-49663400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr10:49658200-49664200	Weak transcription	Adipose Nuclei	Adipose
32	chr10:49658200-49664200	Weak transcription	HUVEC	blood vessel
33	chr10:49658200-49664400	Weak transcription	Right Ventricle	heart
34	chr10:49658400-49662000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr10:49658400-49662000	Strong transcription	Brain Hippocampus Middle	brain
36	chr10:49658400-49662400	Strong transcription	Osteobl	bone
37	chr10:49658600-49662400	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr10:49658600-49662400	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr10:49658600-49664400	Strong transcription	Muscle Satellite Cultured Cells	--
40	chr10:49659200-49661800	Strong transcription	NHDF-Ad	bronchial
41	chr10:49659200-49664000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr10:49660200-49662200	Strong transcription	Aorta	Aorta
43	chr10:49660200-49662800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
44	chr10:49660400-49662000	Strong transcription	Brain Anterior Caudate	brain
45	chr10:49660400-49662200	Strong transcription	K562	blood
46	chr10:49660400-49662200	Strong transcription	NH-A	brain
47	chr10:49660400-49665400	Enhancers	Ovary	ovary
48	chr10:49660600-49663400	Enhancers	Pancreas	Pancrea
49	chr10:49660800-49661800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr10:49660800-49662400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links