Variant report

Variant	rs1456860
Chromosome Location	chr4:62239946-62239947
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10866117	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11131325	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1456861	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2045363	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2124793	0.91[CHB][hapmap];0.89[CHD][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs2342717	0.91[CHB][hapmap];0.88[CHD][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs28414724	0.83[ASN][1000 genomes]
rs4860092	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4860411	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.97[TSI][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6824929	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9684550	0.90[ASN][1000 genomes]
rs9999447	1.00[CEU][hapmap];0.82[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879075	chr4:62124531-62354791	Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Weak transcription Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv461376	chr4:62187646-62274626	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv594327	chr4:62187646-62274626	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62239200-62240000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr4:62239200-62240000	Enhancers	Muscle Satellite Cultured Cells	--
3	chr4:62239400-62240000	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr4:62239400-62241000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr4:62239400-62241000	Enhancers	Hela-S3	cervix
6	chr4:62239400-62241400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr4:62239400-62241400	Enhancers	HSMM	muscle
8	chr4:62239400-62241600	Enhancers	NHEK	skin
9	chr4:62239600-62240200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr4:62239600-62240400	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr4:62239600-62240600	Enhancers	Placenta Amnion	Placenta Amnion
12	chr4:62239600-62241000	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr4:62239600-62241000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr4:62239600-62241000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr4:62239600-62241200	Enhancers	Fetal Lung	lung
16	chr4:62239600-62243000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr4:62239800-62240200	Flanking Active TSS	NH-A	brain
18	chr4:62239800-62240400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
19	chr4:62239800-62240400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr4:62239800-62240400	Enhancers	Brain Substantia Nigra	brain
21	chr4:62239800-62240600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
22	chr4:62239800-62240800	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr4:62239800-62240800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr4:62239800-62240800	Enhancers	Brain Anterior Caudate	brain
25	chr4:62239800-62241400	Enhancers	HMEC	breast
26	chr4:62239800-62241600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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