Variant report

Variant	rs10063885
Chromosome Location	chr5:5429969-5429970
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:5428860..5432733-chr5:5433085..5436947,4	MCF-7	breast:
2	chr5:5424641..5426726-chr5:5429522..5431150,2	MCF-7	breast:
3	chr5:5429159..5430759-chr5:5456085..5458888,2	MCF-7	breast:
4	chr5:5422079..5424356-chr5:5427916..5430128,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164151	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12653733	0.80[CEU][hapmap]
rs1541799	0.84[EUR][1000 genomes]
rs2560297	0.83[AFR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2560298	0.83[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[YRI][hapmap];0.82[AFR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2560299	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2560300	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2578500	0.83[EUR][1000 genomes]
rs2578549	0.86[CEU][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2578550	0.81[CEU][hapmap];0.86[YRI][hapmap];0.83[EUR][1000 genomes]
rs2578552	0.93[YRI][hapmap];0.83[EUR][1000 genomes]
rs2578553	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2578554	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2578556	0.83[EUR][1000 genomes]
rs2578557	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[YRI][hapmap];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2578558	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2578564	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2619827	0.81[EUR][1000 genomes]
rs2619844	0.83[EUR][1000 genomes]
rs2918253	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2918260	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2964131	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2964160	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3098377	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3111175	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61063822	0.82[EUR][1000 genomes]
rs6894118	0.84[EUR][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	nsv1021802	chr5:5415877-5452886	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:5424400-5431400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr5:5424400-5433000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr5:5424400-5433000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr5:5424400-5436800	Weak transcription	Primary monocytes fromperipheralblood	blood
5	chr5:5424400-5437200	Weak transcription	Fetal Thymus	thymus
6	chr5:5424400-5437400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr5:5424400-5437600	Weak transcription	Placenta	Placenta
8	chr5:5424600-5430200	Weak transcription	Fetal Heart	heart
9	chr5:5424600-5430200	ZNF genes & repeats	A549	lung
10	chr5:5424800-5432200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr5:5424800-5436600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr5:5424800-5437600	Weak transcription	Fetal Kidney	kidney
13	chr5:5425000-5430200	Weak transcription	HSMMtube	muscle
14	chr5:5425000-5431400	Weak transcription	HMEC	breast
15	chr5:5425000-5432200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr5:5425000-5432200	Weak transcription	Primary B cells from cord blood	blood
17	chr5:5425000-5436600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr5:5425000-5436600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr5:5425000-5437200	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr5:5425000-5437200	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr5:5425000-5437600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr5:5425000-5437800	Weak transcription	Fetal Muscle Trunk	muscle
23	chr5:5425000-5443600	Weak transcription	Fetal Muscle Leg	muscle
24	chr5:5425200-5430200	Weak transcription	Osteobl	bone
25	chr5:5425200-5431000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr5:5425200-5431600	Weak transcription	NHEK	skin
27	chr5:5425200-5432200	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr5:5425200-5432200	Weak transcription	NHDF-Ad	bronchial
29	chr5:5425200-5432400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr5:5425200-5433000	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr5:5425200-5434800	Enhancers	Skeletal Muscle Female	skeletal muscle
32	chr5:5425200-5436800	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr5:5425200-5439000	Weak transcription	Primary hematopoietic stem cells	blood
34	chr5:5425200-5443200	Weak transcription	Fetal Brain Male	brain
35	chr5:5425200-5443600	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr5:5425200-5443600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr5:5425200-5443600	Weak transcription	Pancreas	Pancrea
38	chr5:5425200-5443800	Weak transcription	Esophagus	oesophagus
39	chr5:5425400-5431000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr5:5425400-5431600	Weak transcription	HUVEC	blood vessel
41	chr5:5425400-5431800	Weak transcription	NH-A	brain
42	chr5:5425400-5434200	Weak transcription	Pancreatic Islets	Pancreatic Islet
43	chr5:5425400-5436600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr5:5425400-5441400	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr5:5425400-5443600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr5:5425400-5443800	Weak transcription	Colonic Mucosa	Colon
47	chr5:5425600-5430400	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr5:5425600-5431000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr5:5425600-5432400	Weak transcription	HSMM	muscle
50	chr5:5425600-5437200	Weak transcription	Fetal Lung	lung

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