Variant report

Variant	rs10960985
Chromosome Location	chr9:13257183-13257184
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	chr9:13256063..13258580-chr9:13259796..13261728,2	MCF-7	breast:

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10809922	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10809924	0.94[ASN][1000 genomes]
rs11788311	0.80[AMR][1000 genomes]
rs11793993	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1330133	0.97[ASN][1000 genomes]
rs6474759	0.94[ASN][1000 genomes]
rs7041374	0.97[ASN][1000 genomes]
rs7048187	0.96[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	nsv892578	chr9:12942956-13485035	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv892583	chr9:13166139-13350478	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv892584	chr9:13214871-13350478	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv427838	chr9:13229753-13393890	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:13164200-13258800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:13189000-13268600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr9:13203000-13261000	Weak transcription	Colon Smooth Muscle	Colon
4	chr9:13208200-13265000	Weak transcription	Aorta	Aorta
5	chr9:13209800-13266000	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr9:13219800-13265600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr9:13224000-13264600	Weak transcription	Osteobl	bone
8	chr9:13226600-13259200	Weak transcription	Right Ventricle	heart
9	chr9:13226800-13278000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr9:13232400-13264800	Weak transcription	NH-A	brain
11	chr9:13236400-13264400	Weak transcription	Fetal Intestine Small	intestine
12	chr9:13238000-13264800	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr9:13240000-13278000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr9:13240800-13263000	Weak transcription	Rectal Smooth Muscle	rectum
15	chr9:13243000-13264800	Weak transcription	Ovary	ovary
16	chr9:13244200-13267600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr9:13245800-13264800	Weak transcription	A549	lung
18	chr9:13246200-13257200	Weak transcription	Gastric	stomach
19	chr9:13246600-13260800	Weak transcription	Primary hematopoietic stem cells	blood
20	chr9:13247800-13258600	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr9:13247800-13259200	Weak transcription	HUVEC	blood vessel
22	chr9:13247800-13266000	Weak transcription	HSMM	muscle
23	chr9:13248000-13264800	Weak transcription	Stomach Smooth Muscle	stomach
24	chr9:13248000-13267800	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr9:13248000-13268600	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr9:13248800-13265000	Weak transcription	Fetal Stomach	stomach
27	chr9:13251600-13259200	Weak transcription	Psoas Muscle	Psoas
28	chr9:13251600-13265200	Weak transcription	Right Atrium	heart
29	chr9:13252200-13267600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr9:13252800-13265000	Weak transcription	Left Ventricle	heart
31	chr9:13254000-13265200	Weak transcription	Brain Angular Gyrus	brain
32	chr9:13255000-13277200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr9:13255200-13258800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr9:13255600-13257400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr9:13255600-13265200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr9:13256000-13257400	Strong transcription	Fetal Lung	lung
37	chr9:13256000-13267600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr9:13256200-13258200	Weak transcription	Fetal Muscle Trunk	muscle
39	chr9:13256200-13260600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr9:13256200-13264600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr9:13256400-13265000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr9:13256600-13257800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
43	chr9:13256600-13265400	Weak transcription	Brain Anterior Caudate	brain
44	chr9:13256600-13266800	Weak transcription	Brain Germinal Matrix	brain
45	chr9:13256600-13269800	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr9:13256800-13277600	Weak transcription	Fetal Muscle Leg	muscle
47	chr9:13257000-13258800	Enhancers	Fetal Heart	heart

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