Variant report

Variant	rs6667810
Chromosome Location	chr1:95198785-95198786
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RUNX3	chr1:95198565-95198875	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
LINC01057	TF binding region

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10874889	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11165228	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11165229	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12131775	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12131798	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12134786	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12140396	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12752621	0.82[EUR][1000 genomes]
rs1689170	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17112194	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1873876	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2055076	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2220764	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28631807	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34730054	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3933012	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4294425	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4294426	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4311897	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4543803	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4565724	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4847349	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4847350	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4847351	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4847352	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4847353	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4847355	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56053685	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56146225	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61339702	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61684001	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6541363	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6663681	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6667889	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6676162	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001587	chr1:95027691-95318680	Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:95168200-95200400	Weak transcription	Pancreas	Pancrea
2	chr1:95169400-95200400	Weak transcription	Colonic Mucosa	Colon
3	chr1:95173400-95200600	Weak transcription	Right Atrium	heart
4	chr1:95186200-95211400	Weak transcription	Gastric	stomach
5	chr1:95189800-95200400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr1:95193200-95200600	Weak transcription	Stomach Mucosa	stomach
7	chr1:95193200-95202200	Weak transcription	Fetal Intestine Large	intestine
8	chr1:95194000-95200400	Weak transcription	Ovary	ovary
9	chr1:95194000-95202800	Weak transcription	Rectal Smooth Muscle	rectum
10	chr1:95194200-95199200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr1:95194200-95199400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr1:95194200-95200400	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr1:95194200-95200600	Weak transcription	Lung	lung
14	chr1:95194200-95200800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr1:95194200-95200800	Weak transcription	Spleen	Spleen
16	chr1:95194400-95200600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr1:95195200-95200400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr1:95195400-95200400	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr1:95195400-95200400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr1:95195400-95200400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr1:95195400-95200400	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr1:95195400-95200400	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr1:95195400-95200400	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr1:95195400-95200400	Weak transcription	HUVEC	blood vessel
25	chr1:95195400-95200600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr1:95195400-95200600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr1:95195400-95200600	Weak transcription	Adipose Nuclei	Adipose
28	chr1:95195600-95200600	Weak transcription	Hela-S3	cervix
29	chr1:95195800-95199400	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr1:95196600-95199200	Weak transcription	Fetal Intestine Small	intestine
31	chr1:95196600-95199400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr1:95196600-95200400	Weak transcription	Placenta	Placenta
33	chr1:95197200-95200600	Weak transcription	Fetal Stomach	stomach
34	chr1:95197200-95200800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr1:95197800-95200600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr1:95198000-95200200	Weak transcription	NHEK	skin
37	chr1:95198000-95200400	Weak transcription	NHLF	lung
38	chr1:95198000-95200600	Weak transcription	NH-A	brain
39	chr1:95198000-95200600	Weak transcription	NHDF-Ad	bronchial
40	chr1:95198200-95200000	Weak transcription	HMEC	breast
41	chr1:95198200-95200200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr1:95198200-95200200	Weak transcription	Placenta Amnion	Placenta Amnion
43	chr1:95198200-95200400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr1:95198200-95200400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr1:95198200-95200400	Weak transcription	HSMM	muscle
46	chr1:95198200-95200400	Weak transcription	HSMMtube	muscle
47	chr1:95198200-95200600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr1:95198200-95205200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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