Variant report

Variant	rs6772051
Chromosome Location	chr3:46143059-46143060
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs1072755	0.84[CEU][hapmap]
rs11130080	0.88[CEU][hapmap]
rs11130085	0.86[ASN][1000 genomes]
rs11130086	0.86[ASN][1000 genomes]
rs11917890	0.86[ASN][1000 genomes]
rs11929281	0.86[ASN][1000 genomes]
rs12485978	0.85[CHB][hapmap];0.86[CHD][hapmap];0.81[YRI][hapmap]
rs12495073	0.84[CEU][hapmap]
rs12496322	0.86[ASN][1000 genomes]
rs12630101	0.84[CEU][hapmap]
rs12635657	0.90[CEU][hapmap]
rs12637023	0.86[ASN][1000 genomes]
rs12639598	0.88[CEU][hapmap]
rs13060901	0.83[CHD][hapmap]
rs13066048	0.84[CEU][hapmap]
rs13073861	0.90[CHB][hapmap];0.84[ASN][1000 genomes]
rs13077099	0.86[ASN][1000 genomes]
rs13077923	0.82[ASN][1000 genomes]
rs13078053	0.84[ASN][1000 genomes]
rs1392290	0.84[CHD][hapmap]
rs1491959	0.85[CHB][hapmap];0.86[CHD][hapmap]
rs1546077	0.85[CHB][hapmap];0.86[CHD][hapmap]
rs1552489	0.84[CEU][hapmap]
rs17078577	0.86[ASN][1000 genomes]
rs2054866	0.84[CEU][hapmap]
rs2131091	0.90[CHB][hapmap];0.93[CHD][hapmap];0.81[GIH][hapmap];0.82[ASN][1000 genomes]
rs2220678	0.82[ASN][1000 genomes]
rs2248228	0.88[CEU][hapmap]
rs2373153	0.81[ASN][1000 genomes]
rs2373154	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[CHD][hapmap];0.85[GIH][hapmap];0.83[TSI][hapmap];0.85[EUR][1000 genomes]
rs34067839	0.82[ASN][1000 genomes]
rs35567508	0.84[ASN][1000 genomes]
rs36111470	0.82[ASN][1000 genomes]
rs3774634	0.84[CEU][hapmap]
rs3774639	0.84[CEU][hapmap]
rs3796375	0.88[CEU][hapmap]
rs3796376	0.85[JPT][hapmap]
rs4535265	0.84[CEU][hapmap]
rs4682810	0.85[CHB][hapmap];0.86[CHD][hapmap]
rs4683148	0.80[CEU][hapmap]
rs4683157	0.84[CEU][hapmap]
rs4683175	0.86[ASN][1000 genomes]
rs4683178	0.86[ASN][1000 genomes]
rs56307311	0.82[ASN][1000 genomes]
rs6764042	0.84[CHD][hapmap]
rs6780163	0.84[CHD][hapmap]
rs6794103	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6795629	0.85[CHB][hapmap]
rs6808074	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6809381	0.89[CHB][hapmap]
rs730983	0.88[CEU][hapmap]
rs737452	0.88[CEU][hapmap]
rs751552	0.88[CEU][hapmap]
rs751553	0.88[CEU][hapmap]
rs7623460	0.84[CHD][hapmap]
rs7643426	0.81[CHB][hapmap];0.85[JPT][hapmap]
rs936938	0.84[CEU][hapmap]
rs9637425	0.85[ASN][1000 genomes]
rs9824886	0.81[CHB][hapmap]
rs9831315	0.80[CEU][hapmap]
rs9851306	0.86[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6772051	UBA7	cis	parietal	SCAN
rs6772051	CXCR6	cis	parietal	SCAN

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46129200-46147400	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr3:46129400-46154200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
3	chr3:46131400-46152200	Weak transcription	Pancreas	Pancrea
4	chr3:46136800-46143200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr3:46139200-46150600	Weak transcription	Lung	lung
6	chr3:46140400-46143400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr3:46140400-46144000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr3:46140400-46144400	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr3:46140400-46146000	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr3:46140400-46149200	Weak transcription	NHLF	lung
11	chr3:46140400-46150000	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr3:46140600-46144000	Weak transcription	NHDF-Ad	bronchial
13	chr3:46140600-46144200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr3:46140600-46146200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr3:46140600-46150000	Weak transcription	Hela-S3	cervix
16	chr3:46140600-46150000	Weak transcription	HMEC	breast
17	chr3:46140800-46150000	Weak transcription	Duodenum Mucosa	Duodenum
18	chr3:46141000-46144000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr3:46141000-46146000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr3:46141000-46148800	Weak transcription	Primary T helper cells fromperipheralblood	blood
21	chr3:46141000-46150200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr3:46141200-46144200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr3:46141200-46144400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr3:46141200-46145800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr3:46142000-46143200	Enhancers	Primary B cells from cord blood	blood
26	chr3:46142000-46145200	Weak transcription	Dnd41	blood
27	chr3:46142200-46143800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
28	chr3:46142600-46143400	ZNF genes & repeats	GM12878-XiMat	blood
29	chr3:46142600-46143800	Weak transcription	Fetal Thymus	thymus
30	chr3:46142600-46144200	Weak transcription	Primary T cells fromperipheralblood	blood
31	chr3:46142600-46146000	Weak transcription	Primary B cells from peripheral blood	blood
32	chr3:46142800-46143400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
33	chr3:46142800-46147400	Enhancers	Primary neutrophils fromperipheralblood	blood
34	chr3:46143000-46145800	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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