Variant report

Variant	rs6772077
Chromosome Location	chr3:112243924-112243925
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10755071	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11706550	0.81[ASN][1000 genomes]
rs1512005	0.83[ASN][1000 genomes]
rs1512006	0.83[ASN][1000 genomes]
rs1844089	0.82[ASN][1000 genomes]
rs1877363	0.83[ASN][1000 genomes]
rs1994713	0.83[ASN][1000 genomes]
rs2131008	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2279532	0.81[ASN][1000 genomes]
rs2280066	0.81[ASN][1000 genomes]
rs2633578	0.82[ASN][1000 genomes]
rs2633580	0.82[ASN][1000 genomes]
rs2633582	0.82[ASN][1000 genomes]
rs2633584	0.82[ASN][1000 genomes]
rs2638016	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2638017	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2638018	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2638022	0.81[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2638037	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2638042	0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2638045	0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs2705566	0.82[ASN][1000 genomes]
rs28866814	0.81[ASN][1000 genomes]
rs2933142	0.88[ASN][1000 genomes]
rs2952323	0.82[ASN][1000 genomes]
rs2952326	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2952327	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs34233684	0.85[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs3732815	0.81[ASN][1000 genomes]
rs4682413	0.88[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs5000995	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6774355	0.84[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs6792947	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7625366	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7652377	0.85[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs766968	0.83[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs9288954	0.81[ASN][1000 genomes]
rs9756562	0.82[ASN][1000 genomes]
rs9809247	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9848054	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9854043	0.90[ASN][1000 genomes]
rs9866734	0.81[ASN][1000 genomes]
rs9869455	0.83[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs9869579	0.83[AFR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003936	chr3:112125931-112274613	Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv998309	chr3:112130290-112278804	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
3	nsv591300	chr3:112144026-112270857	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv1006065	chr3:112147080-112276983	Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv1005323	chr3:112171990-112274613	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
6	nsv877342	chr3:112185025-112332629	Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
7	esv3329419	chr3:112236688-112620544	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
8	nsv965197	chr3:112238965-112250194	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112227400-112269800	Weak transcription	Small Intestine	intestine
2	chr3:112231600-112246800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:112234000-112247600	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr3:112234200-112272000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr3:112237000-112245400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr3:112237000-112247000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr3:112237200-112245600	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr3:112237200-112247400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr3:112237200-112254200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr3:112237400-112245400	Weak transcription	Primary B cells from cord blood	blood
11	chr3:112237800-112245200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr3:112238000-112245800	Weak transcription	Primary T cells from cord blood	blood
13	chr3:112238200-112245600	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr3:112238200-112245800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr3:112238200-112247000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr3:112238200-112247400	Weak transcription	GM12878-XiMat	blood
17	chr3:112238600-112245800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr3:112238600-112249200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr3:112238800-112245600	Weak transcription	Primary B cells from peripheral blood	blood
20	chr3:112238800-112246000	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr3:112239600-112272200	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr3:112239800-112245800	Weak transcription	Brain Germinal Matrix	brain
23	chr3:112239800-112247200	Weak transcription	Lung	lung
24	chr3:112239800-112247400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr3:112239800-112247800	Weak transcription	Aorta	Aorta
26	chr3:112239800-112247800	Weak transcription	Esophagus	oesophagus
27	chr3:112240000-112245800	Weak transcription	Primary T cells fromperipheralblood	blood
28	chr3:112240400-112245800	Weak transcription	Primary hematopoietic stem cells	blood
29	chr3:112240600-112246600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr3:112241000-112246400	Weak transcription	Fetal Muscle Leg	muscle
31	chr3:112241000-112251600	Weak transcription	HUVEC	blood vessel
32	chr3:112241200-112245400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr3:112241200-112245800	Weak transcription	Brain Angular Gyrus	brain
34	chr3:112241400-112245000	Weak transcription	Liver	Liver
35	chr3:112241400-112245600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr3:112241600-112245400	Weak transcription	Fetal Brain Female	brain
37	chr3:112241600-112245600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr3:112241600-112245600	Weak transcription	Brain Hippocampus Middle	brain
39	chr3:112241600-112245600	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr3:112241600-112245600	Weak transcription	Placenta	Placenta
41	chr3:112241600-112245800	Weak transcription	Fetal Intestine Large	intestine
42	chr3:112241600-112259400	Strong transcription	Monocytes-CD14+_RO01746	blood
43	chr3:112241800-112245800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr3:112241800-112245800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr3:112242000-112245200	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr3:112242000-112247400	Weak transcription	Spleen	Spleen
47	chr3:112242000-112247800	Weak transcription	Gastric	stomach
48	chr3:112242000-112248400	Weak transcription	NHDF-Ad	bronchial
49	chr3:112242200-112245800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr3:112242200-112247000	Weak transcription	Brain Inferior Temporal Lobe	brain

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