Variant report

Variant	rs34562568
Chromosome Location	chr9:2626339-2626340
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	chr9:2624771..2627181-chr9:2629101..2631938,2	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10967213	0.85[EUR][1000 genomes]
rs11788728	1.00[ASN][1000 genomes]
rs11789583	1.00[ASN][1000 genomes]
rs11790283	1.00[ASN][1000 genomes]
rs11791537	1.00[ASN][1000 genomes]
rs11793899	1.00[ASN][1000 genomes]
rs11793901	1.00[ASN][1000 genomes]
rs13283954	1.00[ASN][1000 genomes]
rs1567712	1.00[ASN][1000 genomes]
rs17656379	1.00[ASN][1000 genomes]
rs17712698	1.00[ASN][1000 genomes]
rs1869593	1.00[ASN][1000 genomes]
rs1947447	1.00[ASN][1000 genomes]
rs2889261	1.00[ASN][1000 genomes]
rs33955077	1.00[ASN][1000 genomes]
rs33984475	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34318472	1.00[ASN][1000 genomes]
rs35033160	1.00[ASN][1000 genomes]
rs35043989	1.00[ASN][1000 genomes]
rs35075133	1.00[ASN][1000 genomes]
rs35456336	1.00[ASN][1000 genomes]
rs35730767	1.00[ASN][1000 genomes]
rs35769682	1.00[ASN][1000 genomes]
rs35847091	1.00[ASN][1000 genomes]
rs36036004	1.00[ASN][1000 genomes]
rs6144	1.00[ASN][1000 genomes]
rs6145	1.00[ASN][1000 genomes]
rs6148	1.00[ASN][1000 genomes]
rs6475888	1.00[ASN][1000 genomes]
rs7030221	1.00[ASN][1000 genomes]
rs7040916	1.00[ASN][1000 genomes]
rs7045124	1.00[ASN][1000 genomes]
rs7045363	1.00[ASN][1000 genomes]
rs72692565	1.00[ASN][1000 genomes]
rs72692571	1.00[ASN][1000 genomes]
rs72692574	1.00[ASN][1000 genomes]
rs72692579	1.00[ASN][1000 genomes]
rs72692580	1.00[ASN][1000 genomes]
rs72694628	1.00[ASN][1000 genomes]
rs8210	1.00[ASN][1000 genomes]
rs970122	1.00[ASN][1000 genomes]
rs970123	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1020530	chr9:1870197-2658587	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv530929	chr9:1998911-2925112	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv529508	chr9:2267812-2684272	Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv916750	chr9:2430846-2826706	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv531564	chr9:2452325-2700375	Flanking Bivalent TSS/Enh Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	nsv1017581	chr9:2494815-3172020	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
7	nsv539934	chr9:2494815-3172020	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
8	nsv1029876	chr9:2526760-2633562	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv892069	chr9:2600836-2631738	Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv892070	chr9:2610307-2633921	Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv892073	chr9:2620592-2627365	Flanking Bivalent TSS/Enh Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	nsv527298	chr9:2621030-2631092	Flanking Active TSS Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
13	nsv892074	chr9:2623615-2629776	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:2623600-2626600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr9:2623800-2630400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr9:2623800-2641000	Weak transcription	Esophagus	oesophagus
4	chr9:2624000-2627200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr9:2624000-2630000	Weak transcription	Fetal Muscle Trunk	muscle
6	chr9:2624000-2636000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr9:2624200-2630000	Weak transcription	Gastric	stomach
8	chr9:2624200-2631600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr9:2624200-2633800	Weak transcription	Fetal Stomach	stomach
10	chr9:2624200-2635200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr9:2624200-2635200	Enhancers	Fetal Heart	heart
12	chr9:2624200-2635600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr9:2624200-2636000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr9:2624200-2641000	Weak transcription	Aorta	Aorta
15	chr9:2624400-2627000	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr9:2624400-2632200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr9:2624400-2632200	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr9:2624400-2641200	Weak transcription	Fetal Kidney	kidney
19	chr9:2624400-2643000	Weak transcription	Rectal Smooth Muscle	rectum
20	chr9:2624400-2643200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr9:2624600-2632400	Weak transcription	Fetal Lung	lung
22	chr9:2624800-2626400	Weak transcription	Brain Cingulate Gyrus	brain
23	chr9:2624800-2626400	Weak transcription	Brain Hippocampus Middle	brain
24	chr9:2624800-2627000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr9:2624800-2630200	Weak transcription	Brain Anterior Caudate	brain
26	chr9:2624800-2634000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr9:2624800-2635000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr9:2624800-2636000	Weak transcription	A549	lung
29	chr9:2625000-2626400	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr9:2625000-2626400	Weak transcription	Psoas Muscle	Psoas
31	chr9:2625000-2626600	Weak transcription	Left Ventricle	heart
32	chr9:2625000-2626600	Weak transcription	Pancreas	Pancrea
33	chr9:2625000-2626600	Enhancers	Dnd41	blood
34	chr9:2625000-2627200	Enhancers	Adipose Nuclei	Adipose
35	chr9:2625000-2627800	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr9:2625000-2628600	Weak transcription	Right Atrium	heart
37	chr9:2625000-2632400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr9:2625000-2634400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr9:2625000-2641000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr9:2625200-2628400	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr9:2625400-2627600	Enhancers	iPS-15b Cell Line	embryonic stem cell
42	chr9:2625400-2632600	Weak transcription	Brain Angular Gyrus	brain
43	chr9:2625600-2626600	Enhancers	Fetal Brain Male	brain
44	chr9:2625600-2626800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr9:2625600-2627000	Weak transcription	Right Ventricle	heart
46	chr9:2625600-2627200	Enhancers	HUES64 Cell Line	embryonic stem cell
47	chr9:2625600-2630600	Enhancers	Ovary	ovary
48	chr9:2625800-2626600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
49	chr9:2626000-2628000	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr9:2626200-2626800	Enhancers	Brain Substantia Nigra	brain

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