Variant report

Variant	rs9875577
Chromosome Location	chr3:23930211-23930212
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:23930082..23933040-chr3:23982116..23985334,3	K562	blood:
2	chr3:23928892..23934471-chr3:23954964..23961182,8	MCF-7	breast:
3	chr3:23928732..23931780-chr3:23957327..23960285,5	MCF-7	breast:
4	chr3:23925022..23929665-chr3:23929948..23933624,5	K562	blood:
5	chr3:23926252..23934259-chr3:23957614..23962852,12	K562	blood:
6	chr3:23930170..23932162-chr3:23932484..23935358,2	K562	blood:
7	chr3:23929854..23930771-chr3:24538163..24538669,2	K562	blood:
8	chr3:23928978..23930616-chr3:23985826..23987620,2	MCF-7	breast:
9	chr3:23928269..23930887-chr3:23960946..23963532,2	MCF-7	breast:
10	chr3:23927543..23930810-chr3:23985385..23988311,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000197885	Chromatin interaction
ENSG00000174748	Chromatin interaction
ENSG00000174738	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10084748	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1037635	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11129128	0.90[CEU][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13070128	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13087250	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13316457	1.00[ASN][1000 genomes]
rs13317815	0.80[CEU][hapmap]
rs1567579	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1567580	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28524116	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34036067	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34058540	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34082882	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34866549	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34953164	1.00[ASN][1000 genomes]
rs35136361	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35457462	0.86[EUR][1000 genomes]
rs35755171	1.00[ASN][1000 genomes]
rs35755253	1.00[ASN][1000 genomes]
rs36063721	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36089963	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3762775	0.90[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3935253	0.80[CEU][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4131404	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4300960	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4490300	0.80[CEU][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4535169	1.00[ASN][1000 genomes]
rs4602333	0.90[CEU][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];1.00[ASN][1000 genomes]
rs4858096	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4858554	1.00[JPT][hapmap];0.83[YRI][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4858556	1.00[ASN][1000 genomes]
rs4858564	0.80[CEU][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55932805	1.00[ASN][1000 genomes]
rs6550808	0.90[CEU][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66609380	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67002637	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67236598	1.00[ASN][1000 genomes]
rs67606949	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767005	1.00[ASN][1000 genomes]
rs6770052	0.83[YRI][hapmap]
rs6775878	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6776201	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6776568	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6778577	0.80[CEU][hapmap];0.82[YRI][hapmap]
rs6790140	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6791805	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6803214	1.00[ASN][1000 genomes]
rs71324126	1.00[ASN][1000 genomes]
rs73150266	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73150299	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7610689	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7610935	1.00[JPT][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7611018	1.00[JPT][hapmap];0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs954748	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9809225	0.90[CEU][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9812419	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9812870	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9817923	0.83[AMR][1000 genomes]
rs9853954	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9855481	0.90[CEU][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9859567	0.81[CEU][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9863176	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9882067	1.00[JPT][hapmap];0.83[YRI][hapmap];1.00[ASN][1000 genomes]
rs9883834	0.90[CEU][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23901200-23942000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr3:23901800-23935600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr3:23904800-23930800	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr3:23906600-23931800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr3:23907600-23940200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr3:23908000-23931600	Weak transcription	Duodenum Mucosa	Duodenum
7	chr3:23908000-23935600	Weak transcription	Fetal Kidney	kidney
8	chr3:23908000-23935600	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr3:23908000-23940200	Weak transcription	Gastric	stomach
10	chr3:23908200-23930400	Weak transcription	HepG2	liver
11	chr3:23916000-23934000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr3:23916000-23950200	Weak transcription	Aorta	Aorta
13	chr3:23916200-23948800	Weak transcription	Colonic Mucosa	Colon
14	chr3:23916600-23932800	Weak transcription	Fetal Muscle Trunk	muscle
15	chr3:23917200-23931600	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr3:23917600-23931400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr3:23918600-23931600	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr3:23919000-23940000	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr3:23919200-23931000	Weak transcription	Fetal Muscle Leg	muscle
20	chr3:23919200-23931400	Weak transcription	Fetal Lung	lung
21	chr3:23919200-23935800	Weak transcription	Psoas Muscle	Psoas
22	chr3:23919200-23938400	Weak transcription	Ovary	ovary
23	chr3:23919200-23940200	Weak transcription	Pancreas	Pancrea
24	chr3:23919400-23930400	Weak transcription	Brain Hippocampus Middle	brain
25	chr3:23919400-23930400	Weak transcription	NHEK	skin
26	chr3:23919400-23930600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr3:23919400-23931600	Weak transcription	Brain Anterior Caudate	brain
28	chr3:23919400-23932400	Weak transcription	Brain Cingulate Gyrus	brain
29	chr3:23919600-23931000	Weak transcription	NHDF-Ad	bronchial
30	chr3:23919600-23935400	Weak transcription	Stomach Smooth Muscle	stomach
31	chr3:23919800-23931000	Weak transcription	Osteobl	bone
32	chr3:23919800-23931200	Weak transcription	NH-A	brain
33	chr3:23919800-23933600	Weak transcription	NHLF	lung
34	chr3:23920000-23939000	Weak transcription	Muscle Satellite Cultured Cells	--
35	chr3:23920200-23935800	Weak transcription	Brain Germinal Matrix	brain
36	chr3:23920200-23935800	Weak transcription	Right Atrium	heart
37	chr3:23920800-23930400	Weak transcription	HUES48 Cell Line	embryonic stem cell
38	chr3:23920800-23930400	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr3:23920800-23931600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr3:23920800-23940200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr3:23921000-23930400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
42	chr3:23921000-23931000	Weak transcription	Primary B cells from cord blood	blood
43	chr3:23921200-23931600	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr3:23922400-23956600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr3:23922600-23932800	Weak transcription	Adipose Nuclei	Adipose
46	chr3:23922600-23936000	Weak transcription	Right Ventricle	heart
47	chr3:23922600-23940000	Weak transcription	Colon Smooth Muscle	Colon
48	chr3:23922800-23930400	Weak transcription	Hela-S3	cervix
49	chr3:23923000-23930400	Weak transcription	Primary T helper cells PMA-I stimulated	--
50	chr3:23923000-23930400	Weak transcription	HUVEC	blood vessel

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