Variant report

Variant	rs796886
Chromosome Location	chr4:129996889-129996890
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10028974	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11098994	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12503465	0.81[AFR][1000 genomes]
rs172168	0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs17416706	0.81[AFR][1000 genomes]
rs1756011	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1757926	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1757929	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1757937	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1757938	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1757942	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1838911	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs189236	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2044523	0.81[AFR][1000 genomes]
rs2118045	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2592948	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2597837	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2655311	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2777822	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2777823	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs280594	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs280596	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs280597	0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs280601	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3099902	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3099903	0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3113487	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3113488	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs337276	0.81[ASN][1000 genomes]
rs337279	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3980331	0.81[AFR][1000 genomes]
rs55865936	0.89[ASN][1000 genomes]
rs62316971	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62316978	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6845314	0.81[AFR][1000 genomes]
rs6847784	0.81[AFR][1000 genomes]
rs72685321	0.81[AFR][1000 genomes]
rs7654405	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[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	nsv869258	chr4:129191619-130138148	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
2	nsv534538	chr4:129799138-130431688	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv879931	chr4:129939775-130178102	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs796886	C4orf33	cis	Artery Tibial	GTEx
rs796886	C4orf33	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:129977200-130000600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr4:129983000-130001600	Weak transcription	Fetal Heart	heart
3	chr4:129985000-130000000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr4:129985000-130000000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr4:129985000-130000000	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr4:129985000-130000200	Weak transcription	Brain Hippocampus Middle	brain
7	chr4:129985200-129997200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr4:129985200-129999000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr4:129985200-130000000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr4:129985200-130000000	Weak transcription	Fetal Stomach	stomach
11	chr4:129985200-130000200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr4:129985200-130000600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr4:129985200-130000600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr4:129985200-130000600	Weak transcription	Adipose Nuclei	Adipose
15	chr4:129985200-130000600	Weak transcription	Placenta	Placenta
16	chr4:129985200-130000600	Weak transcription	Gastric	stomach
17	chr4:129985200-130000600	Weak transcription	Lung	lung
18	chr4:129985200-130000600	Weak transcription	Ovary	ovary
19	chr4:129985200-130000600	Weak transcription	Spleen	Spleen
20	chr4:129985200-130001000	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr4:129985200-130001200	Weak transcription	Small Intestine	intestine
22	chr4:129985200-130002200	Weak transcription	Pancreas	Pancrea
23	chr4:129985200-130012200	Weak transcription	HSMM	muscle
24	chr4:129985200-130013000	Weak transcription	Rectal Smooth Muscle	rectum
25	chr4:129985200-130013200	Weak transcription	Colon Smooth Muscle	Colon
26	chr4:129986600-130000800	Weak transcription	Osteobl	bone
27	chr4:129986600-130001000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr4:129987000-130011600	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr4:129987400-130000600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr4:129987600-130000600	Weak transcription	NHLF	lung
31	chr4:129990400-130004000	Weak transcription	Right Ventricle	heart
32	chr4:129991600-129998600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr4:129991600-130011800	Weak transcription	Hela-S3	cervix
34	chr4:129991800-130012000	Weak transcription	HUVEC	blood vessel
35	chr4:129992000-130000200	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr4:129992200-130000600	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr4:129992200-130003600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr4:129992200-130005400	Weak transcription	Psoas Muscle	Psoas
39	chr4:129992400-130001200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
40	chr4:129992600-130000800	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr4:129992600-130005800	Weak transcription	Pancreatic Islets	Pancreatic Islet
42	chr4:129992600-130012000	Weak transcription	HepG2	liver
43	chr4:129992800-130001000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr4:129993000-129997800	ZNF genes & repeats	GM12878-XiMat	blood
45	chr4:129993000-130007600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
46	chr4:129993000-130012000	Weak transcription	Stomach Mucosa	stomach
47	chr4:129993400-129998800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr4:129993600-129997400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr4:129994200-130000000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr4:129994400-129998600	Weak transcription	Fetal Kidney	kidney

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