Variant report

Variant	rs1886833
Chromosome Location	chr1:62764907-62764908
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10157938	0.92[ASN][1000 genomes]
rs10465842	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10889318	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12749514	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1325740	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1886834	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1925827	0.91[ASN][1000 genomes]
rs2366207	0.89[ASN][1000 genomes]
rs2477874	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2666509	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2765266	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2765268	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2765269	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35126231	0.89[ASN][1000 genomes]
rs4915606	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4915607	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6587966	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6658312	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6675508	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6675627	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7514266	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7528920	0.88[ASN][1000 genomes]
rs881548	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1004446	chr1:62394631-62813533	Enhancers ZNF genes & repeats Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
2	nsv534984	chr1:62394631-62813533	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1009398	chr1:62656660-62780644	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1013582	chr1:62723703-62910632	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	31 gene(s)	inside rSNPs	diseases
5	nsv431712	chr1:62759369-62766001	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:62754400-62773400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr1:62754800-62765200	Weak transcription	Fetal Heart	heart
3	chr1:62756200-62765000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr1:62759800-62765400	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr1:62759800-62770800	Enhancers	Fetal Muscle Leg	muscle
6	chr1:62761800-62765000	Weak transcription	Fetal Kidney	kidney
7	chr1:62761800-62767200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr1:62762000-62765000	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr1:62762000-62765400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr1:62762000-62765600	Weak transcription	Stomach Smooth Muscle	stomach
11	chr1:62762000-62766000	Weak transcription	Brain Angular Gyrus	brain
12	chr1:62762000-62767000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr1:62762200-62765000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr1:62762200-62765000	Weak transcription	Fetal Thymus	thymus
15	chr1:62762200-62765000	Weak transcription	Left Ventricle	heart
16	chr1:62762200-62765000	Weak transcription	Right Atrium	heart
17	chr1:62762200-62765000	Weak transcription	HMEC	breast
18	chr1:62762200-62765000	Weak transcription	HSMM	muscle
19	chr1:62762200-62765200	Weak transcription	HSMMtube	muscle
20	chr1:62762200-62765400	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr1:62762200-62765600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr1:62762200-62765600	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr1:62762200-62767200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr1:62762200-62773200	Weak transcription	Fetal Lung	lung
25	chr1:62762400-62765000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr1:62762400-62765000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr1:62762400-62765000	Weak transcription	Brain Substantia Nigra	brain
28	chr1:62762400-62765200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr1:62762400-62765200	Weak transcription	Adipose Nuclei	Adipose
30	chr1:62762400-62765200	Weak transcription	Brain Anterior Caudate	brain
31	chr1:62762400-62765200	Weak transcription	Brain Hippocampus Middle	brain
32	chr1:62762400-62765400	Weak transcription	Brain Germinal Matrix	brain
33	chr1:62762600-62765000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr1:62762600-62765600	Weak transcription	Brain Cingulate Gyrus	brain
35	chr1:62762800-62765000	Weak transcription	Fetal Muscle Trunk	muscle
36	chr1:62763200-62765000	Weak transcription	Fetal Stomach	stomach
37	chr1:62763200-62765200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr1:62763200-62765800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr1:62764800-62765200	Enhancers	Sigmoid Colon	Sigmoid Colon
40	chr1:62764800-62765200	Enhancers	HepG2	liver
41	chr1:62764800-62765800	Enhancers	Rectal Mucosa Donor 29	rectum
42	chr1:62764800-62768000	Enhancers	Pancreas	Pancrea

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