Variant report

Variant	rs7852541
Chromosome Location	chr9:108213487-108213488
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:108209547..108211521-chr9:108212923..108215781,2	K562	blood:
2	chr9:108213064..108215063-chr9:108461071..108463977,2	MCF-7	breast:
3	chr9:108207991..108210582-chr9:108211502..108213695,2	K562	blood:

Variant related genes	Relation type
ENSG00000106701	Chromatin interaction
ENSG00000095209	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs1048215	0.81[EUR][1000 genomes]
rs10491809	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10816281	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10816283	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10816285	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10816286	0.81[EUR][1000 genomes]
rs10816287	0.82[EUR][1000 genomes]
rs10816288	0.82[EUR][1000 genomes]
rs10816289	0.80[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs10820803	0.86[AFR][1000 genomes]
rs10820804	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10820811	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10820814	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10820815	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10978169	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10978172	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10978176	0.80[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs10978177	0.80[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs10978179	0.82[EUR][1000 genomes]
rs10991659	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10991673	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10991677	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10991679	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11562356	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12336250	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12336844	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12337780	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12345599	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12352975	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1327352	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1327355	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1887367	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2296750	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2297023	0.92[ASN][1000 genomes]
rs2417625	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs28542455	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28851907	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3750500	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3793639	0.82[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs3818598	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55798036	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7023302	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7023520	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7033138	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7033165	0.82[EUR][1000 genomes]
rs7034149	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7037104	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7037141	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7037218	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7038407	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7047791	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72744263	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72744264	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7854411	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7856617	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7857186	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs997319	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][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	nsv1037750	chr9:108027692-108251733	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	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
3	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

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108211000-108248000	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr9:108211200-108214200	Weak transcription	Small Intestine	intestine
3	chr9:108211200-108219800	Weak transcription	Lung	lung
4	chr9:108211200-108220000	Weak transcription	Left Ventricle	heart
5	chr9:108211200-108220400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr9:108211200-108220400	Weak transcription	Primary B cells from cord blood	blood
7	chr9:108211200-108220600	Weak transcription	Ovary	ovary
8	chr9:108211400-108220000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr9:108211400-108220000	Weak transcription	Right Ventricle	heart
10	chr9:108211400-108222000	Weak transcription	Stomach Mucosa	stomach
11	chr9:108211600-108219600	Weak transcription	Brain Substantia Nigra	brain
12	chr9:108211600-108220000	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr9:108211800-108214200	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr9:108211800-108219600	Weak transcription	Brain Angular Gyrus	brain
15	chr9:108211800-108219800	Weak transcription	Fetal Muscle Leg	muscle
16	chr9:108211800-108220000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr9:108211800-108227000	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr9:108212000-108213600	Weak transcription	Fetal Kidney	kidney
19	chr9:108212200-108213800	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr9:108212200-108213800	Weak transcription	HSMM	muscle
21	chr9:108212200-108214000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr9:108212200-108214000	Enhancers	Fetal Brain Male	brain
23	chr9:108212200-108214400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr9:108212200-108214400	Weak transcription	Stomach Smooth Muscle	stomach
25	chr9:108212200-108216800	Weak transcription	Psoas Muscle	Psoas
26	chr9:108212200-108218200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr9:108212200-108219600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr9:108212200-108219600	Weak transcription	Colon Smooth Muscle	Colon
29	chr9:108212200-108219800	Weak transcription	Brain Anterior Caudate	brain
30	chr9:108212200-108220000	Weak transcription	HUES6 Cell Line	embryonic stem cell
31	chr9:108212200-108220000	Weak transcription	Fetal Intestine Small	intestine
32	chr9:108212200-108220400	Weak transcription	Duodenum Mucosa	Duodenum
33	chr9:108212200-108220600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr9:108212200-108234800	Weak transcription	Rectal Smooth Muscle	rectum
35	chr9:108212400-108213600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr9:108212400-108213600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr9:108212400-108213600	Weak transcription	NHDF-Ad	bronchial
38	chr9:108212400-108214200	Weak transcription	HUVEC	blood vessel
39	chr9:108212400-108214400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr9:108212400-108214400	Weak transcription	Dnd41	blood
41	chr9:108212400-108219600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr9:108212400-108219800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr9:108212600-108213600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr9:108212600-108213600	Weak transcription	Skeletal Muscle Male	skeletal muscle
45	chr9:108212600-108213600	Weak transcription	A549	lung
46	chr9:108212600-108213600	Weak transcription	NHLF	lung
47	chr9:108212600-108213800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr9:108212600-108214200	Weak transcription	Rectal Mucosa Donor 29	rectum
49	chr9:108212600-108214200	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr9:108212600-108214400	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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