Variant report

Variant	rs3015232
Chromosome Location	chr9:72661101-72661102
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:72655440..72657664-chr9:72659271..72661535,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1007127	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs10481740	0.89[ASN][1000 genomes]
rs10481741	0.89[ASN][1000 genomes]
rs10735583	0.89[ASN][1000 genomes]
rs10780811	0.89[ASN][1000 genomes]
rs1927106	0.89[ASN][1000 genomes]
rs1927115	0.85[ASN][1000 genomes]
rs2148861	0.85[ASN][1000 genomes]
rs2209779	0.88[ASN][1000 genomes]
rs2281935	0.80[ASN][1000 genomes]
rs2975862	0.91[ASN][1000 genomes]
rs2975890	0.89[ASN][1000 genomes]
rs2975907	0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2975908	0.90[ASN][1000 genomes]
rs2975910	0.83[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2975915	0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2975917	0.87[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2997652	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2997664	0.85[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs2997676	0.91[ASN][1000 genomes]
rs2997677	0.91[ASN][1000 genomes]
rs2997678	0.91[ASN][1000 genomes]
rs3015168	0.91[ASN][1000 genomes]
rs3015224	0.86[ASN][1000 genomes]
rs3015238	0.91[ASN][1000 genomes]
rs3015242	0.84[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs4744968	0.94[ASN][1000 genomes]
rs4744977	0.89[ASN][1000 genomes]
rs4744978	0.89[ASN][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	nsv893438	chr9:72363992-72720438	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv1049457	chr9:72539144-72765913	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv831613	chr9:72586058-72740061	Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72658200-72661400	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
2	chr9:72658200-72662600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr9:72658600-72662200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr9:72659200-72661200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr9:72659600-72663400	Weak transcription	Spleen	Spleen
6	chr9:72659600-72663800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr9:72659800-72661200	Weak transcription	Aorta	Aorta
8	chr9:72659800-72661400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr9:72659800-72661600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr9:72659800-72661800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr9:72659800-72662000	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
12	chr9:72659800-72663800	Weak transcription	Fetal Heart	heart
13	chr9:72659800-72664200	Weak transcription	Brain Germinal Matrix	brain
14	chr9:72660000-72661400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr9:72660000-72661600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr9:72660000-72662000	Active TSS	Adipose Nuclei	Adipose
17	chr9:72660000-72662200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr9:72660000-72663600	Weak transcription	Brain Hippocampus Middle	brain
19	chr9:72660000-72663800	Weak transcription	Brain Anterior Caudate	brain
20	chr9:72660000-72663800	Weak transcription	Osteobl	bone
21	chr9:72660000-72664600	Weak transcription	Brain Cingulate Gyrus	brain
22	chr9:72660000-72665200	Transcr. at gene 5' and 3'	HSMMtube	muscle
23	chr9:72660000-72668400	Weak transcription	HUVEC	blood vessel
24	chr9:72660200-72661200	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr9:72660200-72661200	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr9:72660200-72661200	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr9:72660200-72661200	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr9:72660200-72661200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr9:72660200-72661200	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr9:72660200-72661400	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr9:72660200-72661400	Enhancers	NHEK	skin
32	chr9:72660200-72661600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr9:72660200-72661600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr9:72660200-72661600	Enhancers	Esophagus	oesophagus
35	chr9:72660200-72661800	Enhancers	ES-I3 Cell Line	embryonic stem cell
36	chr9:72660200-72661800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr9:72660200-72661800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr9:72660200-72662000	Enhancers	Cortex derived primary cultured neurospheres	brain
39	chr9:72660200-72662400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr9:72660200-72663600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr9:72660200-72663600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr9:72660200-72663600	Weak transcription	Psoas Muscle	Psoas
43	chr9:72660200-72663600	Weak transcription	NHLF	lung
44	chr9:72660200-72664000	Weak transcription	Right Ventricle	heart
45	chr9:72660200-72668200	Weak transcription	Pancreas	Pancrea
46	chr9:72660200-72668400	Weak transcription	Gastric	stomach
47	chr9:72660400-72661200	Enhancers	HMEC	breast
48	chr9:72660400-72661400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr9:72660400-72661600	Flanking Active TSS	Rectal Smooth Muscle	rectum
50	chr9:72660400-72663000	Transcr. at gene 5' and 3'	Stomach Smooth Muscle	stomach

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