Variant report

Variant	rs9443623
Chromosome Location	chr6:79614653-79614654
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10806154	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11758432	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11964204	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12176511	0.84[ASN][1000 genomes]
rs12192086	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1338023	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2275290	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2275291	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2321897	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs36017295	0.83[EUR][1000 genomes]
rs3805746	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3818839	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3929867	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6908105	0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.94[ASN][1000 genomes]
rs7740307	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7750836	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7756648	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7776138	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs9341753	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9343849	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9343853	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9343859	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9343865	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9343867	0.90[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];1.00[TSI][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9343869	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9350797	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9350801	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9352668	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9352672	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9352679	0.81[AMR][1000 genomes]
rs9352685	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9352688	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];0.82[YRI][hapmap];0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9352693	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.94[GIH][hapmap];0.93[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.97[TSI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9359361	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9361459	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9361473	1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs9361478	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9361481	0.88[CHB][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs9361483	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9443642	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9448581	0.83[ASN][1000 genomes]
rs9448594	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9448600	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9448601	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9448602	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9448616	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9688928	0.95[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	nsv1015352	chr6:79521820-79757024	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS 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:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:79578400-79619800	Weak transcription	Duodenum Mucosa	Duodenum
2	chr6:79578400-79620000	Weak transcription	Right Ventricle	heart
3	chr6:79578600-79618200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr6:79585200-79619600	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr6:79585200-79620200	Weak transcription	Fetal Lung	lung
6	chr6:79588000-79619800	Weak transcription	Fetal Brain Female	brain
7	chr6:79588200-79616400	Weak transcription	Primary T cells from cord blood	blood
8	chr6:79589600-79618200	Weak transcription	Aorta	Aorta
9	chr6:79589600-79619800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr6:79589800-79620200	Weak transcription	Fetal Brain Male	brain
11	chr6:79592600-79620200	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr6:79596800-79618600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr6:79597000-79620000	Weak transcription	Fetal Kidney	kidney
14	chr6:79597400-79619800	Weak transcription	Ovary	ovary
15	chr6:79600200-79619600	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr6:79604600-79619200	Weak transcription	Fetal Heart	heart
17	chr6:79605000-79619200	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr6:79605200-79619800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr6:79606200-79620200	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr6:79606400-79620200	Weak transcription	Fetal Muscle Trunk	muscle
21	chr6:79606800-79620200	Weak transcription	Fetal Muscle Leg	muscle
22	chr6:79607200-79618200	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr6:79607200-79619600	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr6:79608000-79620200	Weak transcription	Brain Substantia Nigra	brain
25	chr6:79608400-79619000	Weak transcription	Fetal Thymus	thymus
26	chr6:79608800-79615000	Weak transcription	Liver	Liver
27	chr6:79609000-79619000	Weak transcription	Adipose Nuclei	Adipose
28	chr6:79609200-79615600	Weak transcription	Dnd41	blood
29	chr6:79609200-79617200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr6:79609200-79619200	Weak transcription	Fetal Intestine Large	intestine
31	chr6:79609400-79619800	Weak transcription	Primary B cells from cord blood	blood
32	chr6:79609400-79619800	Weak transcription	Left Ventricle	heart
33	chr6:79609400-79620000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr6:79609400-79620200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr6:79610400-79619800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr6:79610600-79620200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr6:79610800-79617000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr6:79610800-79617400	Weak transcription	Primary T helper cells fromperipheralblood	blood
39	chr6:79611800-79615400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
40	chr6:79612600-79619800	Weak transcription	Pancreas	Pancrea
41	chr6:79613000-79620200	Weak transcription	Fetal Stomach	stomach
42	chr6:79613200-79619200	Weak transcription	Fetal Intestine Small	intestine
43	chr6:79613600-79615200	Enhancers	Osteobl	bone
44	chr6:79613600-79616600	Enhancers	HSMM	muscle
45	chr6:79613800-79615600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr6:79613800-79616600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr6:79614000-79616400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr6:79614000-79620200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr6:79614200-79615400	Enhancers	Muscle Satellite Cultured Cells	--
50	chr6:79614200-79617000	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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