Variant report

Variant	rs9392634
Chromosome Location	chr6:4733142-4733143
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:4732911..4734620-chr6:4774132..4776554,2	MCF-7	breast:
2	chr6:4731639..4734329-chr6:4773986..4778095,3	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RPP40-7	chr6:4732329-4733160	NONHSAT107486

Variant related genes	Relation type
ENSG00000236336	Chromatin interaction
ENSG00000153046	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10458178	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11242974	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11242977	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11242978	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11755832	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11759784	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12196896	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12208133	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12211355	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12214737	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1933225	0.81[ASN][1000 genomes]
rs35640627	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35836829	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4960042	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6597094	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6597095	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6915353	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6917691	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6931290	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6931832	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6932591	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6937790	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6938514	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6941511	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6941562	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7745237	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7748184	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7748335	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7748862	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7762773	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7762927	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7767658	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7767968	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs907841	0.88[AFR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9328271	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9328272	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9328273	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9328274	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9378409	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9378410	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9378411	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9378906	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9378907	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9378908	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9378909	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9378910	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9392062	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9392064	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9392626	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9392628	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9392629	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9392630	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9392631	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9392632	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9392635	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9405764	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9405765	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9405766	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9405767	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9405768	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9405769	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9405770	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9405771	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9405772	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9405773	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9405774	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9405776	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9504222	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3366530	chr6:4471528-4865322	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	esv3429586	chr6:4719363-4792438	Flanking Active TSS Bivalent Enhancer Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1017938	chr6:4729592-4774914	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1023527	chr6:4729592-5387176	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4728000-4734400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:4728400-4733200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr6:4728600-4734400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:4728800-4733200	Weak transcription	Stomach Mucosa	stomach
5	chr6:4732000-4733200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr6:4732400-4735400	Enhancers	Placenta Amnion	Placenta Amnion
7	chr6:4732800-4733200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr6:4732800-4733200	Enhancers	Fetal Heart	heart
9	chr6:4732800-4733600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr6:4732800-4734000	Flanking Active TSS	HMEC	breast
11	chr6:4732800-4735200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:4732800-4735200	Enhancers	Placenta	Placenta
13	chr6:4733000-4733200	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
14	chr6:4733000-4733200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr6:4733000-4733200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr6:4733000-4733200	Active TSS	Brain Anterior Caudate	brain
17	chr6:4733000-4733200	Active TSS	Brain Hippocampus Middle	brain
18	chr6:4733000-4733200	Active TSS	Brain Inferior Temporal Lobe	brain
19	chr6:4733000-4733200	Active TSS	Brain Substantia Nigra	brain
20	chr6:4733000-4733200	Flanking Active TSS	Colonic Mucosa	Colon
21	chr6:4733000-4733200	Active TSS	Duodenum Mucosa	Duodenum
22	chr6:4733000-4733200	Active TSS	Duodenum Smooth Muscle	Duodenum
23	chr6:4733000-4733200	Active TSS	Esophagus	oesophagus
24	chr6:4733000-4733200	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
25	chr6:4733000-4733200	Active TSS	Fetal Brain Female	brain
26	chr6:4733000-4733200	Bivalent/Poised TSS	Left Ventricle	heart
27	chr6:4733000-4733200	Active TSS	Psoas Muscle	Psoas
28	chr6:4733000-4733200	Active TSS	Rectal Mucosa Donor 31	rectum
29	chr6:4733000-4733200	Active TSS	Right Atrium	heart
30	chr6:4733000-4733200	Active TSS	Right Ventricle	heart
31	chr6:4733000-4733200	Active TSS	Skeletal Muscle Female	skeletal muscle
32	chr6:4733000-4733200	Active TSS	Stomach Smooth Muscle	stomach
33	chr6:4733000-4733200	Flanking Active TSS	HSMMtube	muscle
34	chr6:4733000-4733200	Flanking Active TSS	NHLF	lung
35	chr6:4733000-4733400	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
36	chr6:4733000-4733400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:4733000-4733400	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr6:4733000-4733400	Enhancers	HUES48 Cell Line	embryonic stem cell
39	chr6:4733000-4733400	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
40	chr6:4733000-4733400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr6:4733000-4733400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr6:4733000-4733400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
43	chr6:4733000-4733400	Flanking Active TSS	Adipose Nuclei	Adipose
44	chr6:4733000-4733400	Flanking Bivalent TSS/Enh	Liver	Liver
45	chr6:4733000-4733400	Active TSS	Brain Angular Gyrus	brain
46	chr6:4733000-4733400	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
47	chr6:4733000-4733400	Active TSS	Colon Smooth Muscle	Colon
48	chr6:4733000-4733400	Enhancers	Fetal Intestine Large	intestine
49	chr6:4733000-4733400	Flanking Active TSS	Fetal Lung	lung
50	chr6:4733000-4733400	Bivalent Enhancer	Fetal Stomach	stomach

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