Variant report

Variant	rs34284682
Chromosome Location	chr3:56655214-56655215
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:56650528..56653127-chr3:56654504..56656215,2	MCF-7	breast:
2	chr3:56654291..56656477-chr3:56715721..56718612,2	MCF-7	breast:
3	chr3:56653784..56655338-chr3:56659121..56661544,2	K562	blood:
4	chr3:56649555..56651399-chr3:56654571..56656999,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000180376	Chromatin interaction
ENSG00000163946	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs13060656	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13068670	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13072654	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13074639	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13080003	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13086565	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13088166	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13089169	0.85[ASN][1000 genomes]
rs13089332	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13090343	0.85[ASN][1000 genomes]
rs13095165	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17825529	0.85[ASN][1000 genomes]
rs1826119	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34097767	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34171578	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34349699	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34480364	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34720351	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34869541	0.85[ASN][1000 genomes]
rs34885435	0.89[EUR][1000 genomes]
rs34911835	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34953718	0.85[ASN][1000 genomes]
rs35070694	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35286628	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35418695	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35564119	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35677810	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35689307	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35728519	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35785755	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35803417	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35940731	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35995233	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs36029237	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs36064180	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs36131262	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3732506	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4060982	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4538344	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4635676	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6807338	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs71309961	0.85[ASN][1000 genomes]
rs71309962	0.85[ASN][1000 genomes]
rs71309963	0.89[EUR][1000 genomes]
rs71309964	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs71309965	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs71309970	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs71309972	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs71309973	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs71309975	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs71621834	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7431634	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][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	nsv460557	chr3:56594735-56661320	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
2	nsv590362	chr3:56594735-56661320	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56626400-56656200	Weak transcription	Stomach Mucosa	stomach
2	chr3:56640800-56664200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
3	chr3:56640800-56695400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:56642800-56713400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr3:56644200-56664000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr3:56644400-56686400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:56644600-56655800	Strong transcription	Cortex derived primary cultured neurospheres	brain
8	chr3:56644600-56665600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
9	chr3:56644600-56668600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr3:56644800-56655400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr3:56644800-56656000	Strong transcription	Fetal Muscle Leg	muscle
12	chr3:56644800-56669800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr3:56644800-56708200	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr3:56645200-56657000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr3:56645400-56667200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr3:56645400-56705200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr3:56645600-56656000	Strong transcription	Fetal Intestine Large	intestine
18	chr3:56645600-56656000	Strong transcription	Fetal Muscle Trunk	muscle
19	chr3:56645600-56664800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr3:56645600-56665800	Strong transcription	Hela-S3	cervix
21	chr3:56645800-56662000	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr3:56645800-56663800	Strong transcription	HSMM	muscle
23	chr3:56646000-56662800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr3:56646200-56659200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr3:56646600-56669000	Weak transcription	Small Intestine	intestine
26	chr3:56646800-56658800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr3:56646800-56659200	Weak transcription	Fetal Intestine Small	intestine
28	chr3:56646800-56673600	Weak transcription	Right Ventricle	heart
29	chr3:56647000-56658400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr3:56647000-56662000	Weak transcription	Esophagus	oesophagus
31	chr3:56647000-56663000	Strong transcription	Liver	Liver
32	chr3:56647000-56664000	Strong transcription	Adipose Nuclei	Adipose
33	chr3:56647000-56666800	Weak transcription	Lung	lung
34	chr3:56647000-56672200	Weak transcription	Gastric	stomach
35	chr3:56647200-56662600	Strong transcription	HUES48 Cell Line	embryonic stem cell
36	chr3:56647200-56664000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr3:56647200-56664000	Strong transcription	Rectal Mucosa Donor 29	rectum
38	chr3:56647400-56655400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr3:56647400-56663800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
40	chr3:56647400-56664000	Strong transcription	Primary T cells from cord blood	blood
41	chr3:56647400-56664200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr3:56647400-56664400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr3:56647400-56707400	Strong transcription	Primary monocytes fromperipheralblood	blood
44	chr3:56647400-56707800	Strong transcription	Fetal Thymus	thymus
45	chr3:56647600-56655400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr3:56647600-56655400	Strong transcription	Brain Inferior Temporal Lobe	brain
47	chr3:56647600-56662400	Strong transcription	Skeletal Muscle Female	skeletal muscle
48	chr3:56647600-56663400	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr3:56647600-56663600	Strong transcription	Primary T cells fromperipheralblood	blood
50	chr3:56647600-56664200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood

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