Variant report

Variant	rs4858823
Chromosome Location	chr3:47522039-47522040
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:47519409..47523186-chr3:47555017..47557218,3	K562	blood:
2	chr3:47519763..47522326-chr3:47552809..47554723,3	K562	blood:
3	chr3:47520594..47523805-chr3:47534550..47538420,3	K562	blood:
4	chr3:47514858..47522453-chr3:47552535..47558710,16	K562	blood:

Variant related genes	Relation type
ENSG00000163832	Chromatin interaction

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs1024036	1.00[EUR][1000 genomes]
rs1038393	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10865947	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1091068	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11707272	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11922925	1.00[EUR][1000 genomes]
rs12488371	1.00[EUR][1000 genomes]
rs12491029	1.00[YRI][hapmap]
rs12631697	1.00[EUR][1000 genomes]
rs13077134	1.00[YRI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13078181	1.00[EUR][1000 genomes]
rs1531874	1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1872165	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1874264	1.00[EUR][1000 genomes]
rs2170814	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2350642	1.00[EUR][1000 genomes]
rs295431	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs295432	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs295434	1.00[YRI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs295443	1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs295444	1.00[EUR][1000 genomes]
rs295445	1.00[EUR][1000 genomes]
rs295448	1.00[YRI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs295450	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs295451	1.00[YRI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs295453	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs295454	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs295455	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs295456	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs295457	1.00[YRI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs295459	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs448018	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4858812	1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4858855	1.00[AMR][1000 genomes]
rs4858896	1.00[EUR][1000 genomes]
rs6442062	1.00[EUR][1000 genomes]
rs6442063	1.00[EUR][1000 genomes]
rs6442066	1.00[EUR][1000 genomes]
rs6442068	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6442069	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs648226	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6767868	1.00[EUR][1000 genomes]
rs6772449	1.00[EUR][1000 genomes]
rs6778673	1.00[EUR][1000 genomes]
rs6778687	1.00[EUR][1000 genomes]
rs6783591	1.00[EUR][1000 genomes]
rs6785538	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6787210	1.00[EUR][1000 genomes]
rs6788978	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6789730	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6801270	0.80[AFR][1000 genomes]
rs6808117	1.00[EUR][1000 genomes]
rs7372780	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7612191	0.87[AMR][1000 genomes]
rs7621853	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7639121	1.00[EUR][1000 genomes]
rs7643150	1.00[EUR][1000 genomes]
rs7644043	1.00[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7649413	1.00[EUR][1000 genomes]
rs807930	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs807933	1.00[EUR][1000 genomes]
rs900688	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs900689	0.93[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs900690	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs900691	1.00[EUR][1000 genomes]
rs900692	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs900693	1.00[YRI][hapmap]
rs900694	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs924009	1.00[EUR][1000 genomes]
rs9823599	0.85[AMR][1000 genomes]
rs9828124	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9861247	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876756	chr3:47002931-47586514	Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:47517400-47523000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:47517600-47523000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:47517800-47523000	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr3:47517800-47527200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr3:47517800-47535200	Weak transcription	Esophagus	oesophagus
6	chr3:47517800-47536600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:47517800-47544400	Weak transcription	Small Intestine	intestine
8	chr3:47518000-47523000	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr3:47518000-47523000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr3:47518200-47523000	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr3:47518200-47536600	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr3:47518200-47541600	Weak transcription	Fetal Kidney	kidney
13	chr3:47518400-47528200	Weak transcription	Fetal Brain Female	brain
14	chr3:47518400-47528200	Weak transcription	HSMM	muscle
15	chr3:47518400-47529200	Weak transcription	Fetal Stomach	stomach
16	chr3:47518400-47530000	Weak transcription	Brain Germinal Matrix	brain
17	chr3:47518400-47530600	Weak transcription	Fetal Muscle Trunk	muscle
18	chr3:47518400-47532800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr3:47518400-47535200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr3:47518400-47535600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr3:47518400-47536600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr3:47518400-47536600	Weak transcription	Primary T cells from cord blood	blood
23	chr3:47518400-47536600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr3:47518400-47536600	Weak transcription	Aorta	Aorta
25	chr3:47518400-47536600	Weak transcription	Duodenum Mucosa	Duodenum
26	chr3:47518400-47536600	Weak transcription	Fetal Muscle Leg	muscle
27	chr3:47518400-47536600	Weak transcription	Gastric	stomach
28	chr3:47518400-47536600	Weak transcription	HSMMtube	muscle
29	chr3:47518400-47536600	Weak transcription	NHLF	lung
30	chr3:47518400-47536800	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr3:47518400-47536800	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr3:47518400-47537000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr3:47518400-47539400	Weak transcription	Primary hematopoietic stem cells	blood
34	chr3:47518600-47523200	Weak transcription	Ovary	ovary
35	chr3:47518600-47523400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr3:47518600-47527200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr3:47518600-47527200	Weak transcription	Thymus	Thymus
38	chr3:47518600-47530000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr3:47518600-47530000	Weak transcription	Fetal Thymus	thymus
40	chr3:47518600-47532200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
41	chr3:47518600-47532200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr3:47518600-47532400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr3:47518600-47533200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr3:47518600-47535400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
45	chr3:47518600-47536400	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr3:47518600-47536600	Weak transcription	Primary B cells from cord blood	blood
47	chr3:47518600-47536600	Weak transcription	Primary T helper cells fromperipheralblood	blood
48	chr3:47518600-47536600	Weak transcription	Muscle Satellite Cultured Cells	--
49	chr3:47518600-47536600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr3:47518600-47536600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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