Variant report

Variant	rs6871003
Chromosome Location	chr5:178380162-178380163
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:178361102..178363466-chr5:178379891..178382466,2	K562	blood:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10464050	0.85[CEU][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11249599	0.89[JPT][hapmap]
rs1475949	0.83[ASN][1000 genomes]
rs1475950	1.00[ASW][hapmap];0.83[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.81[AFR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17078865	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17081834	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1826862	0.91[ASW][hapmap];1.00[CEU][hapmap];0.95[LWK][hapmap];0.90[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2132673	0.91[ASW][hapmap];0.85[CEU][hapmap];1.00[GIH][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs56740821	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56773504	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56790802	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56954828	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59485557	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs59515073	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61213092	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61314110	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6867653	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.91[TSI][hapmap];0.87[YRI][hapmap];0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs73334703	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73334721	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73334723	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73334729	0.97[ASN][1000 genomes]
rs73334737	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73336533	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73336535	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9637932	0.85[CEU][hapmap];0.88[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[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	nsv600489	chr5:178368096-178430375	ZNF genes & repeats Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178369000-178380200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr5:178369000-178384800	ZNF genes & repeats	Fetal Stomach	stomach
3	chr5:178369400-178418200	ZNF genes & repeats	Fetal Brain Female	brain
4	chr5:178373200-178385800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr5:178374600-178380400	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr5:178375600-178381600	Weak transcription	Right Ventricle	heart
7	chr5:178375600-178381800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr5:178375600-178385800	Weak transcription	Osteobl	bone
9	chr5:178375800-178381800	Weak transcription	Rectal Smooth Muscle	rectum
10	chr5:178376800-178383400	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
11	chr5:178376800-178383600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
12	chr5:178377000-178383600	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr5:178378000-178383400	ZNF genes & repeats	Adipose Nuclei	Adipose
14	chr5:178378200-178380200	Weak transcription	Aorta	Aorta
15	chr5:178378400-178380600	ZNF genes & repeats	Fetal Kidney	kidney
16	chr5:178378600-178380400	Weak transcription	Pancreas	Pancrea
17	chr5:178378600-178380800	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
18	chr5:178378800-178380200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr5:178378800-178380400	Weak transcription	Colon Smooth Muscle	Colon
20	chr5:178379000-178380200	Weak transcription	Brain Germinal Matrix	brain
21	chr5:178379000-178380400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr5:178379000-178380800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr5:178379000-178381800	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr5:178379000-178387400	ZNF genes & repeats	Ovary	ovary
25	chr5:178379800-178382400	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
26	chr5:178379800-178383400	ZNF genes & repeats	Fetal Lung	lung
27	chr5:178380000-178380400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr5:178380000-178380600	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr5:178380000-178380600	ZNF genes & repeats	Brain Substantia Nigra	brain
30	chr5:178380000-178380600	ZNF genes & repeats	Fetal Intestine Large	intestine
31	chr5:178380000-178380600	ZNF genes & repeats	Left Ventricle	heart
32	chr5:178380000-178380800	ZNF genes & repeats	Brain Angular Gyrus	brain
33	chr5:178380000-178380800	ZNF genes & repeats	Brain Cingulate Gyrus	brain
34	chr5:178380000-178380800	Strong transcription	Fetal Heart	heart
35	chr5:178380000-178380800	ZNF genes & repeats	Stomach Smooth Muscle	stomach
36	chr5:178380000-178382400	ZNF genes & repeats	Liver	Liver
37	chr5:178380000-178383000	ZNF genes & repeats	Brain Hippocampus Middle	brain
38	chr5:178380000-178383000	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
39	chr5:178380000-178383800	ZNF genes & repeats	Fetal Muscle Leg	muscle
40	chr5:178380000-178393600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast

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