Variant report

Variant	rs9543996
Chromosome Location	chr13:76180378-76180379
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs11840945	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12866456	1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[ASN][1000 genomes]
rs12872149	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1323696	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1535726	0.96[ASN][1000 genomes]
rs2031235	1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs2274049	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2281762	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2328961	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2328962	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs3812844	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3812845	1.00[CHB][hapmap];0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs3812846	1.00[CHB][hapmap];0.83[JPT][hapmap];0.86[ASN][1000 genomes]
rs4539477	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];0.88[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4884008	1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs4885312	0.95[ASN][1000 genomes]
rs4885313	0.94[ASN][1000 genomes]
rs4885314	0.82[ASN][1000 genomes]
rs4885319	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4885321	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4885328	0.93[ASN][1000 genomes]
rs4885330	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4885331	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4885332	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4885333	0.92[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	1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs7319334	0.84[CHB][hapmap]
rs7319441	0.86[ASN][1000 genomes]
rs7326807	1.00[CHB][hapmap];0.84[JPT][hapmap];0.86[ASN][1000 genomes]
rs7331205	0.91[ASN][1000 genomes]
rs7358977	1.00[CHB][hapmap];0.84[JPT][hapmap];0.94[ASN][1000 genomes]
rs7491365	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7982534	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7982613	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7984443	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7995040	0.85[CEU][hapmap];0.84[CHB][hapmap]
rs7995889	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8000062	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8192738	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8192741	1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs8192744	1.00[CEU][hapmap]
rs8192746	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8192748	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs8192750	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs8192751	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8192753	1.00[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9318358	0.81[CHB][hapmap];0.88[JPT][hapmap]
rs9530450	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9530453	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9530456	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9543969	0.84[CHB][hapmap]
rs9543994	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9543997	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9543999	0.96[ASN][1000 genomes]
rs9544008	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9565175	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9573580	0.84[CHB][hapmap]
rs9573584	0.95[ASN][1000 genomes]
rs9573590	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9635000	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs966058	1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs966059	1.00[CEU][hapmap];0.82[CHB][hapmap];0.89[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs972542	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs975938	0.86[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:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:76124600-76183000	Weak transcription	Small Intestine	intestine
2	chr13:76125000-76192800	Weak transcription	Brain Substantia Nigra	brain
3	chr13:76125000-76209600	Weak transcription	Right Ventricle	heart
4	chr13:76125400-76191000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr13:76125600-76182000	Weak transcription	Fetal Brain Male	brain
6	chr13:76129400-76180400	Weak transcription	Thymus	Thymus
7	chr13:76144000-76192400	Weak transcription	NHLF	lung
8	chr13:76144200-76194400	Weak transcription	Stomach Smooth Muscle	stomach
9	chr13:76148200-76192200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr13:76148200-76203000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr13:76148200-76209600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr13:76149800-76209600	Weak transcription	Lung	lung
13	chr13:76158400-76192200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr13:76158600-76182400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr13:76158600-76191400	Weak transcription	Fetal Intestine Small	intestine
16	chr13:76158600-76195200	Weak transcription	NHEK	skin
17	chr13:76158800-76182000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr13:76159000-76194600	Weak transcription	HUVEC	blood vessel
19	chr13:76159000-76209600	Weak transcription	Brain Hippocampus Middle	brain
20	chr13:76159200-76180400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
21	chr13:76159200-76182600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr13:76159200-76186800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr13:76159200-76191200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr13:76159400-76189800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr13:76159400-76201800	Weak transcription	Fetal Lung	lung
26	chr13:76160000-76180400	Weak transcription	Fetal Muscle Trunk	muscle
27	chr13:76160200-76184600	Weak transcription	Fetal Kidney	kidney
28	chr13:76162600-76183400	Weak transcription	Primary neutrophils fromperipheralblood	blood
29	chr13:76164200-76181200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr13:76164400-76183000	Weak transcription	Hela-S3	cervix
31	chr13:76164600-76180600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr13:76164600-76181800	Weak transcription	Ovary	ovary
33	chr13:76164600-76182600	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr13:76164600-76192000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr13:76164600-76194600	Weak transcription	Aorta	Aorta
36	chr13:76164600-76209400	Weak transcription	Esophagus	oesophagus
37	chr13:76164800-76183800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr13:76165200-76209200	Weak transcription	Fetal Muscle Leg	muscle
39	chr13:76166000-76189800	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr13:76166800-76202000	Weak transcription	Fetal Brain Female	brain
41	chr13:76168800-76180800	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr13:76168800-76182000	Weak transcription	HUES64 Cell Line	embryonic stem cell
43	chr13:76169000-76180600	Weak transcription	HUES48 Cell Line	embryonic stem cell
44	chr13:76169200-76182200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr13:76170800-76209600	Weak transcription	Primary B cells from peripheral blood	blood
46	chr13:76172800-76183800	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr13:76174600-76198200	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr13:76174600-76201400	Weak transcription	Psoas Muscle	Psoas
49	chr13:76175000-76181000	Weak transcription	Primary B cells from cord blood	blood
50	chr13:76175800-76180600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

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