Variant report

Variant	rs10820809
Chromosome Location	chr9:108257440-108257441
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	chr9:108256456..108258923-chr9:108260450..108263009,2	MCF-7	breast:
2	chr9:108210245..108212229-chr9:108256841..108259491,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000106701	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10761100	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10816278	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10820810	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10820813	0.88[EUR][1000 genomes]
rs1360089	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1815383	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1987634	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2225246	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2427769	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2518106	0.82[EUR][1000 genomes]
rs2518112	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2518114	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2518120	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2518123	0.85[EUR][1000 genomes]
rs2518128	0.85[EUR][1000 genomes]
rs2518131	0.87[EUR][1000 genomes]
rs2768280	0.85[EUR][1000 genomes]
rs2768283	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2768290	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2768291	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2768294	0.87[EUR][1000 genomes]
rs2771038	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2771041	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2771042	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2812308	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4742650	0.81[AMR][1000 genomes]
rs4742947	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4742948	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6477449	0.85[EUR][1000 genomes]
rs7020083	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[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	nsv1053973	chr9:108199177-108300186	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv615115	chr9:108205262-108298183	Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv893692	chr9:108218852-108320988	ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	n/a
4	nsv1050141	chr9:108219667-108317424	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108214600-108309800	Weak transcription	HUVEC	blood vessel
2	chr9:108221000-108266000	Weak transcription	NHEK	skin
3	chr9:108221000-108277200	Weak transcription	Left Ventricle	heart
4	chr9:108222200-108259000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr9:108222200-108277000	Weak transcription	Ovary	ovary
6	chr9:108222400-108259000	Weak transcription	HSMMtube	muscle
7	chr9:108222600-108311400	Weak transcription	Fetal Heart	heart
8	chr9:108227400-108271600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr9:108227600-108278400	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr9:108228000-108258800	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr9:108228400-108257600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr9:108231800-108296800	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr9:108232600-108268800	Weak transcription	Fetal Brain Female	brain
14	chr9:108233600-108269200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr9:108233600-108272000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr9:108233600-108272400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr9:108233600-108277000	Weak transcription	Adipose Nuclei	Adipose
18	chr9:108236400-108259000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr9:108237800-108259200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr9:108242600-108300000	Weak transcription	Brain Anterior Caudate	brain
21	chr9:108246400-108261200	Weak transcription	GM12878-XiMat	blood
22	chr9:108247800-108271600	Weak transcription	NH-A	brain
23	chr9:108248000-108260000	Weak transcription	HepG2	liver
24	chr9:108248000-108276000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr9:108250600-108263200	Weak transcription	A549	lung
26	chr9:108250600-108268800	Weak transcription	HSMM	muscle
27	chr9:108250800-108268800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr9:108251200-108268600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr9:108251600-108266400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr9:108251600-108272000	Weak transcription	HMEC	breast
31	chr9:108251800-108268800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr9:108257000-108257600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr9:108257000-108257600	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
34	chr9:108257000-108257600	ZNF genes & repeats	Fetal Intestine Small	intestine
35	chr9:108257000-108258200	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
36	chr9:108257000-108258200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr9:108257200-108257800	ZNF genes & repeats	Fetal Stomach	stomach
38	chr9:108257400-108265400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr9:108257400-108269000	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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