Variant report

Variant	rs9530450
Chromosome Location	chr13:76184382-76184383
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	chr13:76177950..76180812-chr13:76181762..76184474,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000118939	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs11840945	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12866456	0.94[CHB][hapmap];0.91[JPT][hapmap];0.95[ASN][1000 genomes]
rs12872149	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1323696	1.00[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1535726	0.96[ASN][1000 genomes]
rs2031235	0.94[CHB][hapmap];0.92[JPT][hapmap];0.92[ASN][1000 genomes]
rs2274049	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2281762	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2328961	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2328962	0.94[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs3812844	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3812845	0.94[CHB][hapmap];0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs3812846	0.93[CHB][hapmap];0.83[ASN][1000 genomes]
rs4539477	1.00[CEU][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4884008	0.94[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs4885312	0.92[ASN][1000 genomes]
rs4885313	0.91[ASN][1000 genomes]
rs4885319	1.00[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4885321	1.00[CEU][hapmap];0.94[CHB][hapmap];0.92[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4885328	0.93[ASN][1000 genomes]
rs4885330	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4885331	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4885332	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4885333	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4885334	0.90[ASN][1000 genomes]
rs61960594	0.95[ASN][1000 genomes]
rs6562920	0.98[ASN][1000 genomes]
rs7139862	0.94[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs7319441	0.83[ASN][1000 genomes]
rs7326807	0.94[CHB][hapmap];0.83[ASN][1000 genomes]
rs7331205	0.88[ASN][1000 genomes]
rs7358977	0.94[CHB][hapmap];0.90[ASN][1000 genomes]
rs7491365	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7982534	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7982613	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7984443	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7995040	0.85[CEU][hapmap];0.80[CHB][hapmap]
rs7995889	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8000062	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8192738	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8192741	0.94[CHB][hapmap];0.92[JPT][hapmap];0.92[ASN][1000 genomes]
rs8192744	1.00[CEU][hapmap]
rs8192746	0.92[CEU][hapmap];0.94[CHB][hapmap];0.92[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8192748	0.85[JPT][hapmap]
rs8192750	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs8192751	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8192753	1.00[CEU][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9318358	0.83[JPT][hapmap]
rs9530453	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9530456	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9543969	0.80[CHB][hapmap]
rs9543994	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9543996	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9543997	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9543999	0.96[ASN][1000 genomes]
rs9544008	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9565175	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9573580	0.80[CHB][hapmap]
rs9573584	0.92[ASN][1000 genomes]
rs9573590	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9635000	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs966058	0.94[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs966059	1.00[CEU][hapmap];0.84[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs972542	1.00[CEU][hapmap];0.93[CHB][hapmap];0.91[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs975938	0.83[ASN][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	nsv900571	chr13:76123678-76207565	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv900577	chr13:76132484-76207565	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	esv2751152	chr13:76144199-76288418	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:76125000-76192800	Weak transcription	Brain Substantia Nigra	brain
2	chr13:76125000-76209600	Weak transcription	Right Ventricle	heart
3	chr13:76125400-76191000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr13:76144000-76192400	Weak transcription	NHLF	lung
5	chr13:76144200-76194400	Weak transcription	Stomach Smooth Muscle	stomach
6	chr13:76148200-76192200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr13:76148200-76203000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr13:76148200-76209600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr13:76149800-76209600	Weak transcription	Lung	lung
10	chr13:76158400-76192200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr13:76158600-76191400	Weak transcription	Fetal Intestine Small	intestine
12	chr13:76158600-76195200	Weak transcription	NHEK	skin
13	chr13:76159000-76194600	Weak transcription	HUVEC	blood vessel
14	chr13:76159000-76209600	Weak transcription	Brain Hippocampus Middle	brain
15	chr13:76159200-76186800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr13:76159200-76191200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr13:76159400-76189800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr13:76159400-76201800	Weak transcription	Fetal Lung	lung
19	chr13:76160200-76184600	Weak transcription	Fetal Kidney	kidney
20	chr13:76164600-76192000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr13:76164600-76194600	Weak transcription	Aorta	Aorta
22	chr13:76164600-76209400	Weak transcription	Esophagus	oesophagus
23	chr13:76165200-76209200	Weak transcription	Fetal Muscle Leg	muscle
24	chr13:76166000-76189800	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr13:76166800-76202000	Weak transcription	Fetal Brain Female	brain
26	chr13:76170800-76209600	Weak transcription	Primary B cells from peripheral blood	blood
27	chr13:76174600-76198200	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr13:76174600-76201400	Weak transcription	Psoas Muscle	Psoas
29	chr13:76175800-76191000	Weak transcription	HSMMtube	muscle
30	chr13:76176400-76184600	Strong transcription	Osteobl	bone
31	chr13:76176800-76199400	Weak transcription	Placenta	Placenta
32	chr13:76177000-76184800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr13:76177600-76191000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
34	chr13:76177600-76191400	Weak transcription	Fetal Intestine Large	intestine
35	chr13:76177600-76209400	Weak transcription	Left Ventricle	heart
36	chr13:76177600-76209600	Weak transcription	Fetal Stomach	stomach
37	chr13:76179000-76189800	Weak transcription	NHDF-Ad	bronchial
38	chr13:76180000-76209600	Weak transcription	Primary T helper cells PMA-I stimulated	--
39	chr13:76180600-76204000	Weak transcription	GM12878-XiMat	blood
40	chr13:76180800-76189600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr13:76180800-76204600	Weak transcription	Dnd41	blood
42	chr13:76180800-76209200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
43	chr13:76180800-76209200	Weak transcription	Adipose Nuclei	Adipose
44	chr13:76180800-76209600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr13:76181000-76191000	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr13:76181000-76191400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr13:76181000-76194600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr13:76181000-76209400	Weak transcription	Fetal Thymus	thymus
49	chr13:76181000-76209600	Weak transcription	Primary T helper cells fromperipheralblood	blood
50	chr13:76181000-76209600	Weak transcription	Duodenum Smooth Muscle	Duodenum

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