Variant report

Variant	rs6475585
Chromosome Location	chr9:21826538-21826539
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	chr9:21803276..21805320-chr9:21825031..21828014,2	MCF-7	breast:
2	chr9:21825303..21827537-chr9:22080207..22082765,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000099810	Chromatin interaction

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10118262	0.80[EUR][1000 genomes]
rs10738599	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10757253	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10757254	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10757255	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10811613	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10811615	0.93[ASN][1000 genomes]
rs10811617	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10811618	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10965122	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10965127	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12344842	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12380505	0.80[CHB][hapmap]
rs1335505	0.94[CHB][hapmap];0.88[JPT][hapmap]
rs1335512	0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1345022	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1372057	0.94[CHB][hapmap];0.88[JPT][hapmap]
rs1372058	0.94[CHB][hapmap];0.88[JPT][hapmap];0.82[YRI][hapmap]
rs1372059	0.94[CHB][hapmap];0.88[JPT][hapmap];0.82[YRI][hapmap]
rs1414228	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1414229	0.84[ASN][1000 genomes]
rs1414242	0.93[CHB][hapmap];0.88[JPT][hapmap]
rs1414244	0.94[CHB][hapmap];0.88[JPT][hapmap]
rs1440993	0.84[ASN][1000 genomes]
rs1542074	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1542075	1.00[CHB][hapmap];0.94[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1542076	1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17833407	0.86[CHB][hapmap]
rs1889680	0.80[CHB][hapmap];0.82[JPT][hapmap]
rs2123338	0.80[CHB][hapmap];0.82[JPT][hapmap]
rs2152272	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2152273	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2165408	1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap]
rs2184551	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2891159	0.93[CHB][hapmap];0.88[JPT][hapmap]
rs3849929	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3927737	1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3927738	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3928894	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4352937	0.94[CHB][hapmap];0.88[JPT][hapmap]
rs4364717	1.00[CHB][hapmap];0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs4431674	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4548267	0.94[CHB][hapmap];0.88[JPT][hapmap]
rs4636294	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs6475576	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6475578	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6475579	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7018772	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7021012	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7022856	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7023474	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7023680	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7024027	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7027989	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7033503	1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[YRI][hapmap];0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7037577	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7038708	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7045768	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72691561	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72691562	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72691563	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72691564	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7846749	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7850446	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7852450	0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7852710	0.80[EUR][1000 genomes]
rs7856941	0.83[EUR][1000 genomes]
rs7866540	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7866787	0.83[EUR][1000 genomes]
rs7866885	0.83[EUR][1000 genomes]
rs869329	0.94[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs869330	1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[YRI][hapmap];0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs871024	1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9298823	0.94[CHB][hapmap];0.88[JPT][hapmap]
rs935053	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs935055	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9886831	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529609	chr9:21708371-22537069	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv8426	chr9:21763810-22176200	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21804000-21838200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr9:21806600-21841200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:21809200-21836800	Weak transcription	Small Intestine	intestine
4	chr9:21814000-21831800	Weak transcription	Fetal Heart	heart
5	chr9:21814400-21831800	Weak transcription	Stomach Mucosa	stomach
6	chr9:21814400-21837400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr9:21814400-21845200	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr9:21816400-21836600	Weak transcription	Psoas Muscle	Psoas
9	chr9:21816600-21833800	Weak transcription	Fetal Brain Male	brain
10	chr9:21816800-21833200	Weak transcription	Brain Angular Gyrus	brain
11	chr9:21817400-21829000	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr9:21817400-21830200	Weak transcription	Colon Smooth Muscle	Colon
13	chr9:21817400-21837800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr9:21817800-21840600	Weak transcription	Colonic Mucosa	Colon
15	chr9:21818600-21840800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr9:21818800-21840400	Weak transcription	Right Ventricle	heart
17	chr9:21819000-21828800	Weak transcription	HSMMtube	muscle
18	chr9:21819000-21831400	Weak transcription	NHLF	lung
19	chr9:21819200-21827200	Weak transcription	NHDF-Ad	bronchial
20	chr9:21819200-21828800	Weak transcription	Osteobl	bone
21	chr9:21819400-21827400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr9:21819400-21827600	Weak transcription	NH-A	brain
23	chr9:21819400-21829000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
24	chr9:21819400-21829200	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr9:21819400-21830800	Weak transcription	HUVEC	blood vessel
26	chr9:21819400-21831400	Weak transcription	Placenta	Placenta
27	chr9:21819400-21831800	Weak transcription	Skeletal Muscle Male	skeletal muscle
28	chr9:21819400-21833800	Weak transcription	Rectal Smooth Muscle	rectum
29	chr9:21819400-21840400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr9:21819400-21841600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
31	chr9:21819600-21830600	Weak transcription	Brain Cingulate Gyrus	brain
32	chr9:21819800-21832400	Weak transcription	Brain Anterior Caudate	brain
33	chr9:21823000-21830600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr9:21823800-21826600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr9:21823800-21826800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr9:21823800-21840400	Strong transcription	Fetal Muscle Leg	muscle
37	chr9:21824000-21830000	Strong transcription	Duodenum Smooth Muscle	Duodenum
38	chr9:21824000-21830800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr9:21824000-21831200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr9:21824200-21826800	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr9:21824200-21840400	Strong transcription	Fetal Lung	lung
42	chr9:21824400-21827800	Strong transcription	Esophagus	oesophagus
43	chr9:21824400-21828400	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr9:21824400-21828800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr9:21824400-21830200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr9:21824400-21831000	Strong transcription	Primary monocytes fromperipheralblood	blood
47	chr9:21824400-21831000	Strong transcription	Monocytes-CD14+_RO01746	blood
48	chr9:21824400-21831200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr9:21824400-21831400	Strong transcription	Primary T helper cells fromperipheralblood	blood
50	chr9:21824600-21829200	Strong transcription	Sigmoid Colon	Sigmoid Colon

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