Variant report

Variant	rs3821964
Chromosome Location	chr4:96040704-96040705
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10018945	0.95[MEX][hapmap];0.88[TSI][hapmap]
rs10155123	0.85[CEU][hapmap]
rs10155222	0.85[CEU][hapmap]
rs10212627	0.85[CEU][hapmap]
rs10516958	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs11097456	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11097457	0.81[ASW][hapmap];0.96[CEU][hapmap];0.93[GIH][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11097458	0.85[CEU][hapmap]
rs12640643	0.80[EUR][1000 genomes]
rs12644188	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12650281	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1347345	0.95[MEX][hapmap];0.88[TSI][hapmap]
rs1365691	0.81[CEU][hapmap];0.89[GIH][hapmap];0.80[EUR][1000 genomes]
rs1369085	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs1434535	0.80[EUR][1000 genomes]
rs1434536	0.85[CEU][hapmap];0.89[GIH][hapmap];0.80[EUR][1000 genomes]
rs1434538	0.85[CEU][hapmap];0.81[EUR][1000 genomes]
rs1434539	0.85[CEU][hapmap];0.89[GIH][hapmap];0.81[EUR][1000 genomes]
rs1434544	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1434545	0.87[MEX][hapmap];0.80[TSI][hapmap]
rs1540403	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs17344975	0.87[MEX][hapmap];0.80[TSI][hapmap]
rs17348139	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17403454	0.83[MEX][hapmap]
rs17411860	0.87[MEX][hapmap];0.80[TSI][hapmap]
rs1813074	0.82[CEU][hapmap]
rs1836261	0.87[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.86[TSI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1863654	0.80[EUR][1000 genomes]
rs1865379	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1966548	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1970801	0.93[ASW][hapmap];1.00[CEU][hapmap];0.93[GIH][hapmap];0.91[MEX][hapmap];0.81[MKK][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2114533	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2162450	0.80[EUR][1000 genomes]
rs2241743	0.96[CEU][hapmap];0.81[TSI][hapmap];0.85[EUR][1000 genomes]
rs2241744	0.85[CEU][hapmap]
rs2289044	0.96[CEU][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2865397	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3755876	0.85[CEU][hapmap];0.84[CHD][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3775042	0.84[CEU][hapmap];0.81[EUR][1000 genomes]
rs3796437	0.84[CEU][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3796439	0.86[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3796443	0.85[CEU][hapmap];0.84[CHD][hapmap];0.91[GIH][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4583767	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4699831	0.87[MEX][hapmap];0.80[TSI][hapmap]
rs58399580	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60472405	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6532527	0.95[MEX][hapmap];0.90[TSI][hapmap]
rs6815593	0.87[MEX][hapmap];0.80[TSI][hapmap]
rs6815969	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7664562	0.96[CEU][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7681920	0.95[MEX][hapmap];0.88[TSI][hapmap]
rs7682651	0.87[MEX][hapmap];0.80[TSI][hapmap]
rs7694043	0.87[MEX][hapmap]
rs7694131	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7694531	0.92[CEU][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs965823	0.82[CEU][hapmap]
rs975608	0.82[CEU][hapmap]
rs989383	0.85[CEU][hapmap];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932216	chr4:95501261-96109807	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1003860	chr4:95507683-96120619	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv869528	chr4:95537649-96368018	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv492312	chr4:95823124-96128327	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv830011	chr4:95947560-96103934	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
6	nsv594907	chr4:95975470-96170439	Enhancers Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:96016000-96060600	Weak transcription	Thymus	Thymus
2	chr4:96016600-96054200	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr4:96024000-96044600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr4:96024200-96060600	Weak transcription	Fetal Muscle Leg	muscle
5	chr4:96025000-96054600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr4:96025600-96042000	Strong transcription	Dnd41	blood
7	chr4:96026400-96057000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr4:96028200-96051600	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr4:96029600-96050200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr4:96029600-96051000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr4:96029600-96051000	Weak transcription	Stomach Smooth Muscle	stomach
12	chr4:96030400-96054200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr4:96031400-96044400	Weak transcription	A549	lung
14	chr4:96034200-96079200	Weak transcription	Fetal Kidney	kidney
15	chr4:96034800-96060600	Weak transcription	Ovary	ovary
16	chr4:96035200-96041600	Strong transcription	Fetal Thymus	thymus
17	chr4:96035600-96051000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr4:96036400-96046600	Weak transcription	Fetal Muscle Trunk	muscle
19	chr4:96038600-96050200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr4:96040000-96051000	Weak transcription	Aorta	Aorta

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