Variant report

Variant	rs9842865
Chromosome Location	chr3:145831700-145831701
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:145831639..145836013-chr3:145876068..145880595,7	MCF-7	breast:
2	chr3:145786878..145789402-chr3:145831602..145833986,2	MCF-7	breast:
3	chr3:145829569..145840903-chr3:145873254..145880972,31	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152952	Chromatin interaction
ENSG00000240032	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs12632001	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12695808	0.91[AFR][1000 genomes]
rs13088158	0.82[AFR][1000 genomes]
rs1349214	0.90[AFR][1000 genomes]
rs1349215	0.90[AFR][1000 genomes]
rs1449440	0.90[AFR][1000 genomes]
rs1449450	0.86[AFR][1000 genomes]
rs1530741	0.82[AFR][1000 genomes]
rs1613698	0.86[AFR][1000 genomes]
rs1613796	0.86[AFR][1000 genomes]
rs1707465	0.82[AFR][1000 genomes]
rs1707473	0.83[AFR][1000 genomes]
rs1900926	0.91[AFR][1000 genomes]
rs2029137	0.81[AFR][1000 genomes]
rs2864792	0.88[AFR][1000 genomes]
rs3749282	0.82[EUR][1000 genomes]
rs3792341	0.81[AFR][1000 genomes]
rs3804659	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3804660	0.90[AFR][1000 genomes]
rs3804661	0.90[AFR][1000 genomes]
rs3804665	0.82[AFR][1000 genomes]
rs3804668	0.81[AFR][1000 genomes]
rs3804669	0.81[AFR][1000 genomes]
rs3816399	0.89[AFR][1000 genomes]
rs6440417	0.89[AFR][1000 genomes]
rs6440419	0.90[AFR][1000 genomes]
rs67406460	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6783601	0.87[AFR][1000 genomes]
rs6787634	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6800294	0.86[AFR][1000 genomes]
rs6801418	0.89[AFR][1000 genomes]
rs6802384	0.87[AFR][1000 genomes]
rs73010484	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7614409	0.81[AFR][1000 genomes]
rs895929	0.85[AFR][1000 genomes]
rs895930	0.85[AFR][1000 genomes]
rs9289715	0.89[AFR][1000 genomes]
rs9289718	0.86[AFR][1000 genomes]
rs9809099	0.87[AFR][1000 genomes]
rs9822426	0.85[AFR][1000 genomes]
rs9828112	0.89[AFR][1000 genomes]
rs9836521	0.89[AFR][1000 genomes]
rs9842036	0.91[AFR][1000 genomes]
rs9852725	0.81[AFR][1000 genomes]
rs9858081	0.89[AFR][1000 genomes]
rs9858095	0.89[AFR][1000 genomes]
rs9862237	0.83[AFR][1000 genomes]
rs9865802	0.85[AFR][1000 genomes]
rs9878166	0.89[AFR][1000 genomes]
rs9882583	0.87[AFR][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	nsv877584	chr3:144903957-145833232	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv525829	chr3:145614317-145863779	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv4046	chr3:145693249-145880189	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:145781800-145831800	Weak transcription	Psoas Muscle	Psoas
2	chr3:145782800-145843200	Weak transcription	Pancreas	Pancrea
3	chr3:145784600-145848800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr3:145790400-145843200	Weak transcription	Right Ventricle	heart
5	chr3:145791600-145833800	Weak transcription	NHDF-Ad	bronchial
6	chr3:145798800-145839200	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr3:145808600-145833000	Weak transcription	Fetal Lung	lung
8	chr3:145810400-145849800	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr3:145810800-145851200	Weak transcription	Brain Hippocampus Middle	brain
10	chr3:145812200-145839200	Weak transcription	Rectal Smooth Muscle	rectum
11	chr3:145814200-145841000	Weak transcription	Lung	lung
12	chr3:145816000-145836800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr3:145816400-145842000	Weak transcription	Colonic Mucosa	Colon
14	chr3:145819800-145841800	Weak transcription	Fetal Heart	heart
15	chr3:145819800-145849200	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr3:145820000-145834000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr3:145821000-145849800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr3:145821200-145835200	Weak transcription	Colon Smooth Muscle	Colon
19	chr3:145821200-145835400	Weak transcription	Stomach Smooth Muscle	stomach
20	chr3:145822200-145833800	Weak transcription	Fetal Kidney	kidney
21	chr3:145822800-145836800	Weak transcription	Ovary	ovary
22	chr3:145823000-145831800	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr3:145823200-145832000	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr3:145824600-145835000	Weak transcription	HMEC	breast
25	chr3:145824600-145839600	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr3:145825000-145835400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr3:145826800-145833200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr3:145827000-145855200	Weak transcription	Aorta	Aorta
29	chr3:145827400-145831800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr3:145827400-145833600	Weak transcription	Fetal Intestine Large	intestine
31	chr3:145827400-145836600	Weak transcription	Adipose Nuclei	Adipose
32	chr3:145827400-145836600	Weak transcription	HSMMtube	muscle
33	chr3:145827400-145840200	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr3:145827400-145842000	Weak transcription	Duodenum Mucosa	Duodenum
35	chr3:145828000-145833000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr3:145828400-145833000	Weak transcription	HUVEC	blood vessel
37	chr3:145828400-145833400	Weak transcription	NH-A	brain
38	chr3:145828600-145837200	Strong transcription	HSMM	muscle
39	chr3:145830000-145832400	Weak transcription	Osteobl	bone
40	chr3:145830200-145832000	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr3:145830200-145832800	Weak transcription	Liver	Liver
42	chr3:145830200-145833000	Weak transcription	A549	lung
43	chr3:145830400-145832400	Weak transcription	HepG2	liver
44	chr3:145831200-145832200	ZNF genes & repeats	Fetal Stomach	stomach
45	chr3:145831400-145832200	ZNF genes & repeats	Left Ventricle	heart
46	chr3:145831400-145848400	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr3:145831600-145831800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr3:145831600-145832000	ZNF genes & repeats	Placenta	Placenta
49	chr3:145831600-145832200	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr3:145831600-145834600	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain

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