Variant report

Variant	rs16862837
Chromosome Location	chr3:150469858-150469859
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:150456316..150460204-chr3:150468516..150472450,4	K562	blood:
2	chr3:150438013..150440747-chr3:150468346..150470747,3	MCF-7	breast:
3	chr3:150451008..150453913-chr3:150469068..150470821,2	K562	blood:
4	chr3:150457628..150460204-chr3:150468516..150471242,2	K562	blood:
5	chr3:150460997..150463769-chr3:150468534..150470874,2	K562	blood:

Variant related genes	Relation type
ENSG00000244668	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10513377	0.82[CHB][hapmap]
rs1148368	0.83[ASN][1000 genomes]
rs12695960	0.85[ASN][1000 genomes]
rs1444197	1.00[CEU][hapmap]
rs1533711	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16862842	1.00[CEU][hapmap];0.89[JPT][hapmap]
rs1814463	0.82[EUR][1000 genomes]
rs1814464	0.82[EUR][1000 genomes]
rs1879420	1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1879421	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1879422	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1991781	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2014279	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs2018246	1.00[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2116684	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs2116685	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2166061	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34348847	1.00[CEU][hapmap];0.84[JPT][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs3851356	1.00[CEU][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs41372346	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs41454348	1.00[CEU][hapmap]
rs481236	0.95[CHB][hapmap];0.93[CHD][hapmap];0.89[JPT][hapmap];0.96[ASN][1000 genomes]
rs502941	0.91[CHB][hapmap];0.91[CHD][hapmap];0.81[GIH][hapmap];0.89[JPT][hapmap];0.96[ASN][1000 genomes]
rs55899470	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57275328	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57824095	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57869178	0.82[EUR][1000 genomes]
rs594926	0.91[CHB][hapmap];0.91[CHD][hapmap];0.89[JPT][hapmap];0.96[ASN][1000 genomes]
rs60259684	0.82[EUR][1000 genomes]
rs6440696	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6440697	1.00[CEU][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes]
rs6769917	0.82[EUR][1000 genomes]
rs6777178	0.82[EUR][1000 genomes]
rs6788895	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6789306	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6805481	1.00[CEU][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73003792	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73006998	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs73006999	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73008903	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73008905	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73008907	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73010930	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73010941	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73010956	0.82[EUR][1000 genomes]
rs73010964	0.82[EUR][1000 genomes]
rs73010965	0.82[EUR][1000 genomes]
rs7615125	1.00[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7615292	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];0.84[GIH][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7617507	0.88[ASW][hapmap];1.00[CEU][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]
rs7628481	1.00[CEU][hapmap]
rs7628776	1.00[CEU][hapmap]
rs7636866	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs939476	0.82[CHB][hapmap]

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	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150453800-150478000	Weak transcription	Brain Germinal Matrix	brain
2	chr3:150454600-150477200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr3:150456400-150477600	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr3:150456600-150477600	Weak transcription	Fetal Brain Male	brain
5	chr3:150456800-150477400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr3:150457000-150478800	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr3:150457600-150477600	Weak transcription	HUVEC	blood vessel
8	chr3:150458400-150471600	Genic enhancers	HepG2	liver
9	chr3:150459000-150477600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr3:150460200-150477600	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr3:150460400-150475200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr3:150460400-150477600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr3:150460600-150470600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr3:150460600-150470800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr3:150461200-150471800	Enhancers	Stomach Mucosa	stomach
16	chr3:150461200-150474000	Weak transcription	Dnd41	blood
17	chr3:150461800-150472000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:150462800-150477000	Weak transcription	Brain Angular Gyrus	brain
19	chr3:150463000-150475400	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr3:150463000-150477800	Weak transcription	NH-A	brain
21	chr3:150463000-150478400	Weak transcription	HSMM	muscle
22	chr3:150463200-150470600	Weak transcription	NHLF	lung
23	chr3:150463200-150475600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr3:150463200-150477600	Weak transcription	Brain Cingulate Gyrus	brain
25	chr3:150464800-150470600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr3:150464800-150470600	Weak transcription	Fetal Muscle Trunk	muscle
27	chr3:150464800-150477000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr3:150465000-150475200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr3:150465400-150470600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr3:150465400-150470600	Weak transcription	Stomach Smooth Muscle	stomach
31	chr3:150466200-150471000	Enhancers	Fetal Intestine Large	intestine
32	chr3:150466200-150471400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
33	chr3:150466200-150477600	Weak transcription	Aorta	Aorta
34	chr3:150466400-150470400	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr3:150466400-150470600	Enhancers	Fetal Intestine Small	intestine
36	chr3:150466400-150471400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
37	chr3:150466400-150477800	Weak transcription	Brain Substantia Nigra	brain
38	chr3:150466600-150471000	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr3:150466800-150470400	Weak transcription	Monocytes-CD14+_RO01746	blood
40	chr3:150466800-150472800	Weak transcription	Primary neutrophils fromperipheralblood	blood
41	chr3:150466800-150477600	Weak transcription	Brain Hippocampus Middle	brain
42	chr3:150467000-150477000	Weak transcription	Primary hematopoietic stem cells	blood
43	chr3:150467000-150477600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
44	chr3:150467000-150477600	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr3:150467200-150470800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr3:150467200-150470800	Enhancers	Pancreas	Pancrea
47	chr3:150467200-150471600	Enhancers	Sigmoid Colon	Sigmoid Colon
48	chr3:150467200-150473600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr3:150467200-150473800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr3:150467200-150477000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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