Variant report

Variant	rs6773604
Chromosome Location	chr3:136169737-136169738
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:136168950..136171423-chr3:136205433..136206933,2	K562	blood:

Extended variants
information (count: 79 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10513002	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs10513016	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap]
rs16843879	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap]
rs16843978	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[YRI][hapmap];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16843991	1.00[CHB][hapmap]
rs17199880	1.00[CEU][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap]
rs17199978	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17265675	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs17266364	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17365351	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap]
rs35375192	1.00[CHB][hapmap]
rs35644083	1.00[CHB][hapmap]
rs3913715	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3931416	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.88[EUR][1000 genomes]
rs4125861	1.00[ASN][1000 genomes]
rs55763637	0.83[EUR][1000 genomes]
rs55848312	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56057807	1.00[ASN][1000 genomes]
rs56083120	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56095774	0.88[AMR][1000 genomes]
rs56218376	0.96[EUR][1000 genomes]
rs56264828	1.00[ASN][1000 genomes]
rs57681357	0.83[EUR][1000 genomes]
rs58636237	0.92[EUR][1000 genomes]
rs58641485	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60014495	0.93[EUR][1000 genomes]
rs60270684	0.99[EUR][1000 genomes]
rs6439638	1.00[CHB][hapmap]
rs6439642	1.00[CHB][hapmap]
rs66470158	0.82[EUR][1000 genomes]
rs66494666	0.99[EUR][1000 genomes]
rs66637842	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66902780	0.82[EUR][1000 genomes]
rs66973954	0.96[EUR][1000 genomes]
rs67082054	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs67230667	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67281610	0.90[EUR][1000 genomes]
rs67303976	0.90[EUR][1000 genomes]
rs67305360	0.96[EUR][1000 genomes]
rs67389407	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs67452583	1.00[ASN][1000 genomes]
rs67525027	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs67621498	0.93[EUR][1000 genomes]
rs67663578	0.93[EUR][1000 genomes]
rs67677899	1.00[ASN][1000 genomes]
rs6769582	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6773495	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[EUR][1000 genomes]
rs6776841	1.00[CHB][hapmap]
rs67794070	0.93[EUR][1000 genomes]
rs6783337	1.00[CHB][hapmap]
rs67888773	0.82[EUR][1000 genomes]
rs67902591	0.92[EUR][1000 genomes]
rs67963055	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs67971203	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6804194	1.00[CHB][hapmap]
rs73224201	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73226130	0.96[EUR][1000 genomes]
rs73228025	0.85[EUR][1000 genomes]
rs73228040	0.82[EUR][1000 genomes]
rs7625592	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7636806	0.90[EUR][1000 genomes]
rs7644471	1.00[CHB][hapmap]
rs7646127	0.85[LWK][hapmap]
rs7646563	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap]
rs7646723	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap]
rs7650075	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7652176	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9820513	1.00[CHB][hapmap]
rs9833162	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948461	chr3:135969755-136349636	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv877519	chr3:136035737-136279390	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv877520	chr3:136056861-136310985	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv877521	chr3:136069286-136310985	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv877522	chr3:136088038-136241028	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv877523	chr3:136088038-136310985	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	nsv520012	chr3:136088038-136314119	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
8	nsv877524	chr3:136112109-136295283	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
9	nsv877525	chr3:136112109-136310985	Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
10	nsv877526	chr3:136149139-136310985	ZNF genes & repeats Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6773604	IL20RB	cis	Artery Tibial	GTEx

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136054600-136172000	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr3:136079400-136174200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr3:136085800-136174800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:136086200-136174800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr3:136110800-136174200	Weak transcription	Esophagus	oesophagus
6	chr3:136112200-136174200	Weak transcription	Osteobl	bone
7	chr3:136113000-136174200	Weak transcription	Aorta	Aorta
8	chr3:136115400-136174200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr3:136116200-136173400	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr3:136116600-136174400	Weak transcription	Hela-S3	cervix
11	chr3:136118200-136170400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr3:136124600-136174000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:136129800-136174200	Weak transcription	HSMMtube	muscle
14	chr3:136131400-136175400	Weak transcription	HMEC	breast
15	chr3:136133200-136173800	Weak transcription	Fetal Heart	heart
16	chr3:136133600-136173400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr3:136135200-136173400	Weak transcription	NHEK	skin
18	chr3:136138200-136173600	Weak transcription	Brain Angular Gyrus	brain
19	chr3:136138800-136171400	Weak transcription	HepG2	liver
20	chr3:136138800-136174200	Weak transcription	Brain Anterior Caudate	brain
21	chr3:136139800-136175400	Weak transcription	Small Intestine	intestine
22	chr3:136139800-136175800	Weak transcription	Right Ventricle	heart
23	chr3:136140000-136174200	Weak transcription	Pancreas	Pancrea
24	chr3:136140000-136175800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr3:136143200-136174000	Weak transcription	GM12878-XiMat	blood
26	chr3:136148000-136174400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr3:136158800-136174400	Weak transcription	NHDF-Ad	bronchial
28	chr3:136160600-136174000	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr3:136160600-136174200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr3:136161000-136170400	Weak transcription	Lung	lung
31	chr3:136161000-136172800	Weak transcription	Fetal Brain Female	brain
32	chr3:136161000-136173200	Weak transcription	Brain Germinal Matrix	brain
33	chr3:136161000-136174000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr3:136161000-136176000	Weak transcription	NHLF	lung
35	chr3:136161200-136173600	Weak transcription	Fetal Kidney	kidney
36	chr3:136161200-136174200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr3:136161200-136175000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
38	chr3:136161400-136172800	Weak transcription	Placenta Amnion	Placenta Amnion
39	chr3:136161400-136173400	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr3:136161600-136174600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
41	chr3:136161800-136173000	Weak transcription	Fetal Muscle Trunk	muscle
42	chr3:136161800-136173200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr3:136161800-136174200	Weak transcription	Stomach Smooth Muscle	stomach
44	chr3:136161800-136174200	Weak transcription	Spleen	Spleen
45	chr3:136161800-136174400	Weak transcription	Gastric	stomach
46	chr3:136161800-136176000	Weak transcription	Rectal Smooth Muscle	rectum
47	chr3:136162000-136169800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr3:136162000-136169800	Weak transcription	Primary neutrophils fromperipheralblood	blood
49	chr3:136162000-136169800	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr3:136162000-136174200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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