Variant report

Variant	rs56283068
Chromosome Location	chr3:56170344-56170345
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs1023882	1.00[ASN][1000 genomes]
rs55926504	1.00[ASN][1000 genomes]
rs56132867	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56163631	1.00[ASN][1000 genomes]
rs56216904	1.00[ASN][1000 genomes]
rs56227347	1.00[ASN][1000 genomes]
rs56304204	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56317923	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56378219	1.00[ASN][1000 genomes]
rs56383777	1.00[ASN][1000 genomes]
rs56988974	1.00[ASN][1000 genomes]
rs57708875	1.00[ASN][1000 genomes]
rs58067804	1.00[ASN][1000 genomes]
rs58720638	1.00[ASN][1000 genomes]
rs59412382	1.00[ASN][1000 genomes]
rs59923603	1.00[ASN][1000 genomes]
rs60120946	1.00[ASN][1000 genomes]
rs61092323	1.00[ASN][1000 genomes]
rs61163420	1.00[ASN][1000 genomes]
rs61248828	1.00[ASN][1000 genomes]
rs61524165	1.00[ASN][1000 genomes]
rs73072703	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73072704	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078455	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078456	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078458	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078461	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078464	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs73078465	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078470	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078474	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078477	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078479	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078482	1.00[ASN][1000 genomes]
rs73078483	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078485	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078488	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078496	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73078547	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73080405	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73080407	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73080408	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73082476	1.00[ASN][1000 genomes]
rs73083368	1.00[ASN][1000 genomes]
rs73083374	1.00[ASN][1000 genomes]
rs73083379	1.00[ASN][1000 genomes]
rs73083381	1.00[ASN][1000 genomes]
rs73086157	1.00[ASN][1000 genomes]
rs73086168	1.00[ASN][1000 genomes]
rs73086178	1.00[ASN][1000 genomes]
rs73086185	1.00[ASN][1000 genomes]
rs73086190	1.00[ASN][1000 genomes]
rs73086191	1.00[ASN][1000 genomes]
rs73086196	1.00[ASN][1000 genomes]
rs73086422	1.00[ASN][1000 genomes]
rs73086435	1.00[ASN][1000 genomes]
rs73086436	1.00[ASN][1000 genomes]
rs73086437	1.00[ASN][1000 genomes]
rs73086439	1.00[ASN][1000 genomes]
rs73086440	1.00[ASN][1000 genomes]
rs73086441	1.00[ASN][1000 genomes]
rs73086449	1.00[ASN][1000 genomes]
rs73088517	1.00[ASN][1000 genomes]
rs73088520	1.00[ASN][1000 genomes]
rs73088522	1.00[ASN][1000 genomes]
rs73088532	1.00[ASN][1000 genomes]
rs73088534	1.00[ASN][1000 genomes]
rs73089162	1.00[ASN][1000 genomes]
rs73089166	1.00[ASN][1000 genomes]
rs73089189	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73089267	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73089280	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73091043	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091049	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091050	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091252	1.00[ASN][1000 genomes]
rs73091253	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091256	1.00[ASN][1000 genomes]
rs73091258	1.00[ASN][1000 genomes]
rs73091259	1.00[ASN][1000 genomes]
rs73091260	1.00[ASN][1000 genomes]
rs73091265	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091267	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091268	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091269	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73091270	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7634259	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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:26 , 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	chr3:56165200-56170600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr3:56166400-56170400	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr3:56166400-56171000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr3:56166400-56173600	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr3:56166600-56171200	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr3:56167400-56170600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr3:56168200-56171000	Weak transcription	HUVEC	blood vessel
11	chr3:56168200-56171000	Weak transcription	NH-A	brain
12	chr3:56168200-56171600	Weak transcription	Brain Germinal Matrix	brain
13	chr3:56168400-56171200	Weak transcription	HSMMtube	muscle
14	chr3:56168600-56171400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr3:56168800-56170600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr3:56168800-56170800	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr3:56168800-56170800	Weak transcription	HSMM	muscle
18	chr3:56168800-56182400	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr3:56169400-56170400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:56169800-56170400	Enhancers	HMEC	breast
21	chr3:56170000-56170400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr3:56170000-56170800	Enhancers	Ovary	ovary
23	chr3:56170000-56171400	Enhancers	A549	lung
24	chr3:56170200-56170600	Enhancers	HUES6 Cell Line	embryonic stem cell
25	chr3:56170200-56170800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr3:56170200-56172000	Enhancers	Osteobl	bone

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