Variant report

Variant	rs6560524
Chromosome Location	chr9:79072043-79072044
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10869781	1.00[ASN][1000 genomes]
rs11144905	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11144908	1.00[ASN][1000 genomes]
rs11144909	1.00[ASN][1000 genomes]
rs12351617	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12378822	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12380332	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1324212	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55740812	0.83[ASN][1000 genomes]
rs57339182	0.95[ASN][1000 genomes]
rs57429014	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58651349	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59322809	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62564441	0.85[EUR][1000 genomes]
rs62564442	0.87[EUR][1000 genomes]
rs62564444	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62564446	0.95[ASN][1000 genomes]
rs62564449	1.00[ASN][1000 genomes]
rs62564454	1.00[ASN][1000 genomes]
rs62565109	0.94[ASN][1000 genomes]
rs62567918	0.83[ASN][1000 genomes]
rs7854540	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[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	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv893478	chr9:78933874-79101006	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv893479	chr9:78971253-79275226	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79066600-79073600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr9:79068600-79073600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr9:79069400-79073400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr9:79069800-79073600	Enhancers	Primary hematopoietic stem cells short term culture	blood
5	chr9:79070000-79073400	Enhancers	Primary hematopoietic stem cells	blood
6	chr9:79070600-79072200	Enhancers	HUVEC	blood vessel
7	chr9:79070600-79072800	Enhancers	Fetal Thymus	thymus
8	chr9:79070800-79072400	Enhancers	Fetal Intestine Large	intestine
9	chr9:79071000-79072200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
10	chr9:79071000-79072400	Enhancers	Sigmoid Colon	Sigmoid Colon
11	chr9:79071200-79072200	Enhancers	Primary T cells from cord blood	blood
12	chr9:79071400-79073800	Weak transcription	Liver	Liver
13	chr9:79071400-79073800	Weak transcription	Fetal Muscle Leg	muscle
14	chr9:79071400-79074000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr9:79071600-79072400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr9:79071600-79073400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr9:79071600-79073400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr9:79071600-79073400	Weak transcription	A549	lung
19	chr9:79071600-79073600	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr9:79071600-79073600	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr9:79071600-79073600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr9:79071600-79073600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr9:79071600-79073600	Weak transcription	HMEC	breast
24	chr9:79071600-79073800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr9:79071600-79074200	Weak transcription	K562	blood
26	chr9:79071800-79072200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr9:79071800-79073400	Weak transcription	Primary T helper cells PMA-I stimulated	--
28	chr9:79071800-79073400	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr9:79071800-79073600	Weak transcription	HUES64 Cell Line	embryonic stem cell
30	chr9:79071800-79073600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr9:79071800-79073600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr9:79071800-79073600	Weak transcription	Primary monocytes fromperipheralblood	blood
33	chr9:79071800-79073600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
34	chr9:79071800-79073600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr9:79071800-79073600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr9:79071800-79073600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr9:79071800-79073600	Weak transcription	Pancreatic Islets	Pancreatic Islet
38	chr9:79071800-79073600	Weak transcription	Placenta	Placenta
39	chr9:79071800-79073600	Weak transcription	Hela-S3	cervix
40	chr9:79071800-79073600	Weak transcription	NH-A	brain
41	chr9:79071800-79073800	Weak transcription	Primary T cells fromperipheralblood	blood
42	chr9:79071800-79073800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
43	chr9:79071800-79073800	Weak transcription	Lung	lung
44	chr9:79071800-79073800	Weak transcription	NHLF	lung
45	chr9:79071800-79074000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
46	chr9:79071800-79074000	Weak transcription	Spleen	Spleen
47	chr9:79072000-79072800	Weak transcription	Stomach Mucosa	stomach
48	chr9:79072000-79073000	Weak transcription	Monocytes-CD14+_RO01746	blood
49	chr9:79072000-79073400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr9:79072000-79073400	Weak transcription	Primary B cells from peripheral blood	blood

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