Variant report

Variant	rs9844377
Chromosome Location	chr3:56167965-56167966
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs13323783	0.86[EUR][1000 genomes]
rs13324556	0.95[EUR][1000 genomes]
rs1452206	0.95[EUR][1000 genomes]
rs1452207	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1466178	0.85[ASN][1000 genomes]
rs1519030	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1519031	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17056469	1.00[ASN][1000 genomes]
rs17056493	0.95[ASN][1000 genomes]
rs28397662	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28407987	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28485564	0.95[ASN][1000 genomes]
rs28496913	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28583826	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28655135	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28689027	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28766049	0.91[EUR][1000 genomes]
rs28780379	0.86[EUR][1000 genomes]
rs28829645	0.86[EUR][1000 genomes]
rs28888991	0.81[EUR][1000 genomes]
rs56141852	0.85[ASN][1000 genomes]
rs6788505	0.85[ASN][1000 genomes]
rs73078492	0.95[ASN][1000 genomes]
rs73078494	0.90[ASN][1000 genomes]
rs73091055	0.90[ASN][1000 genomes]
rs9311597	1.00[ASN][1000 genomes]
rs9810412	0.86[EUR][1000 genomes]
rs9811952	0.95[ASN][1000 genomes]
rs9815714	0.86[EUR][1000 genomes]
rs9816050	0.86[EUR][1000 genomes]
rs9818484	0.95[EUR][1000 genomes]
rs9820348	0.89[ASN][1000 genomes]
rs9821284	0.86[EUR][1000 genomes]
rs9824306	0.85[ASN][1000 genomes]
rs9824691	0.95[EUR][1000 genomes]
rs9830503	1.00[ASN][1000 genomes]
rs9834432	0.95[EUR][1000 genomes]
rs9834759	0.95[EUR][1000 genomes]
rs9840027	0.95[EUR][1000 genomes]
rs9842348	0.86[EUR][1000 genomes]
rs9843455	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9844806	0.81[EUR][1000 genomes]
rs9853630	0.95[ASN][1000 genomes]
rs9859491	0.87[EUR][1000 genomes]
rs9862097	1.00[ASN][1000 genomes]
rs9865282	0.95[EUR][1000 genomes]
rs9867542	0.86[EUR][1000 genomes]
rs9867636	0.81[EUR][1000 genomes]
rs9873343	0.85[ASN][1000 genomes]
rs9878055	0.86[EUR][1000 genomes]
rs9879781	0.81[EUR][1000 genomes]
rs9880997	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1009709	chr3:56000827-56294945	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56157800-56175400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:56160000-56170600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:56163000-56171400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:56164800-56168000	Enhancers	NHLF	lung
5	chr3:56164800-56168200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr3:56165200-56168800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr3:56165200-56170600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr3:56165400-56168200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:56165400-56168200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr3:56165400-56168800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:56165400-56168800	Enhancers	HSMM	muscle
12	chr3:56165600-56168000	Enhancers	HMEC	breast
13	chr3:56165600-56168200	Enhancers	NHEK	skin
14	chr3:56165600-56168200	Enhancers	Osteobl	bone
15	chr3:56165600-56168600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr3:56165800-56168200	Enhancers	HUVEC	blood vessel
17	chr3:56166200-56168000	Weak transcription	Brain Germinal Matrix	brain
18	chr3:56166400-56168200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:56166400-56168200	Enhancers	NH-A	brain
20	chr3:56166400-56168600	Enhancers	NHDF-Ad	bronchial
21	chr3:56166400-56168800	Enhancers	Muscle Satellite Cultured Cells	--
22	chr3:56166400-56170400	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr3:56166400-56171000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr3:56166400-56173600	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr3:56166600-56170200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr3:56166600-56170200	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr3:56166600-56171200	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr3:56166800-56169400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr3:56167400-56170600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr3:56167600-56168000	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr3:56167600-56168200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr3:56167600-56168400	Enhancers	HSMMtube	muscle
33	chr3:56167800-56168400	Flanking Active TSS	A549	lung

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