Variant report

Variant	rs6825815
Chromosome Location	chr4:15522947-15522948
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs1154577	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11726647	0.86[JPT][hapmap]
rs13106528	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs13122812	0.84[ASN][1000 genomes]
rs13127507	0.84[ASN][1000 genomes]
rs13131119	0.82[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];1.00[TSI][hapmap];0.88[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13131285	0.84[ASN][1000 genomes]
rs13138894	0.84[ASN][1000 genomes]
rs13141724	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs13144428	1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1468735	1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1468736	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs16892135	1.00[JPT][hapmap]
rs16892143	1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs16892156	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs17476670	1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs17476831	0.84[ASN][1000 genomes]
rs1786	0.86[JPT][hapmap]
rs2041672	1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2041673	1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs3182730	0.84[ASN][1000 genomes]
rs34036638	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs34155734	0.84[ASN][1000 genomes]
rs34427409	0.84[ASN][1000 genomes]
rs34599140	0.84[ASN][1000 genomes]
rs34831330	1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs34924677	0.84[ASN][1000 genomes]
rs35151159	0.84[ASN][1000 genomes]
rs35196224	0.84[ASN][1000 genomes]
rs35258636	0.84[ASN][1000 genomes]
rs35309200	0.84[ASN][1000 genomes]
rs35461787	0.84[ASN][1000 genomes]
rs35724720	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36012186	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3756247	0.86[JPT][hapmap]
rs41417147	1.00[JPT][hapmap]
rs4267734	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs4301111	0.86[JPT][hapmap]
rs4326008	1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs4396986	0.86[JPT][hapmap]
rs4423870	0.86[JPT][hapmap]
rs4549375	0.86[JPT][hapmap]
rs4613560	0.84[ASN][1000 genomes]
rs56004462	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57275698	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6414764	0.86[JPT][hapmap]
rs6449150	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs66472670	0.84[ASN][1000 genomes]
rs67047740	0.84[ASN][1000 genomes]
rs67089836	0.84[ASN][1000 genomes]
rs67222859	0.84[ASN][1000 genomes]
rs67224550	0.84[ASN][1000 genomes]
rs6815254	0.86[JPT][hapmap]
rs6824422	0.86[JPT][hapmap]
rs6825051	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs6826058	0.86[JPT][hapmap]
rs6834359	0.84[ASN][1000 genomes]
rs6835038	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6839654	0.86[JPT][hapmap]
rs6844141	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6852735	0.85[JPT][hapmap]
rs73237149	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73237151	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3448986	chr4:14928802-15805558	Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv2757923	chr4:15444617-15749520	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv2759227	chr4:15444617-15749520	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15482600-15526400	Weak transcription	HMEC	breast
2	chr4:15487400-15570400	Weak transcription	Psoas Muscle	Psoas
3	chr4:15490400-15539600	Weak transcription	Esophagus	oesophagus
4	chr4:15495600-15559400	Weak transcription	HSMMtube	muscle
5	chr4:15498200-15538400	Weak transcription	Fetal Heart	heart
6	chr4:15499600-15528400	Weak transcription	Pancreas	Pancrea
7	chr4:15500400-15523200	Weak transcription	NHEK	skin
8	chr4:15501400-15525400	Strong transcription	Stomach Smooth Muscle	stomach
9	chr4:15502000-15539400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr4:15502400-15525600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
11	chr4:15502400-15539400	Weak transcription	Duodenum Mucosa	Duodenum
12	chr4:15502800-15549200	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr4:15502800-15577600	Weak transcription	Right Ventricle	heart
14	chr4:15504400-15526800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr4:15507600-15538200	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr4:15508200-15538600	Weak transcription	Primary T cells from cord blood	blood
17	chr4:15508200-15556400	Weak transcription	Colonic Mucosa	Colon
18	chr4:15508400-15530000	Weak transcription	NHDF-Ad	bronchial
19	chr4:15508400-15530400	Weak transcription	NH-A	brain
20	chr4:15508800-15545800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr4:15509200-15564400	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr4:15509600-15553400	Weak transcription	HepG2	liver
23	chr4:15512000-15580000	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr4:15513000-15562400	Weak transcription	Primary B cells from cord blood	blood
25	chr4:15513800-15538400	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr4:15515400-15545200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr4:15515800-15523800	Strong transcription	Fetal Muscle Leg	muscle
28	chr4:15516000-15545600	Weak transcription	Fetal Thymus	thymus
29	chr4:15516200-15524000	Strong transcription	Fetal Stomach	stomach
30	chr4:15516200-15525600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr4:15516200-15538000	Weak transcription	Liver	Liver
32	chr4:15516400-15523800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr4:15516800-15523800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr4:15517200-15530400	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr4:15517200-15538600	Weak transcription	Brain Angular Gyrus	brain
36	chr4:15517800-15551600	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr4:15517800-15593600	Weak transcription	HUVEC	blood vessel
38	chr4:15518200-15524000	Strong transcription	Fetal Kidney	kidney
39	chr4:15518400-15529000	Weak transcription	Placenta	Placenta
40	chr4:15519000-15523800	Strong transcription	Fetal Intestine Large	intestine
41	chr4:15519400-15529200	Weak transcription	Fetal Brain Male	brain
42	chr4:15519400-15538600	Weak transcription	Brain Substantia Nigra	brain
43	chr4:15519400-15539600	Weak transcription	Gastric	stomach
44	chr4:15519800-15539600	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr4:15520000-15572400	Weak transcription	Small Intestine	intestine
46	chr4:15520200-15526600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr4:15520400-15529000	Weak transcription	Adipose Nuclei	Adipose
48	chr4:15520400-15532200	Weak transcription	Lung	lung
49	chr4:15520400-15538600	Weak transcription	Brain Cingulate Gyrus	brain
50	chr4:15520400-15539000	Weak transcription	NHLF	lung

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