Variant report

Variant	rs4958564
Chromosome Location	chr5:152005941-152005942
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10155517	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10515675	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10515676	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11167584	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11956651	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12188564	0.84[EUR][1000 genomes]
rs13359939	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13361438	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17452991	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17453481	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17453530	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17453740	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17453775	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17454420	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17455800	0.87[EUR][1000 genomes]
rs17550343	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17565365	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17565470	0.87[EUR][1000 genomes]
rs17565505	0.85[EUR][1000 genomes]
rs17565693	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs2961756	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2961760	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2961765	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2961766	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2964230	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2964231	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3923209	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4246033	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4398624	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4406125	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4478308	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4484412	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4557395	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4580766	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4958316	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4958317	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4958320	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4958323	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4958560	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4958561	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4958562	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4958566	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4958567	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4958568	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4958569	0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55648729	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55786399	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56014830	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67979431	0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6871699	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6876403	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6876723	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6884556	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6895969	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72795376	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72795379	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72795389	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72797226	1.00[ASN][1000 genomes]
rs72797233	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72797237	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72797241	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72797243	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72797251	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72797254	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72797262	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72797296	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72799113	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9324734	0.98[EUR][1000 genomes];0.91[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	nsv1023676	chr5:151979253-152925064	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv537927	chr5:151979253-152925064	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:152002600-152010400	Weak transcription	Fetal Lung	lung
2	chr5:152002600-152013600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr5:152002600-152014000	Weak transcription	Brain Substantia Nigra	brain
4	chr5:152002800-152008000	Weak transcription	Fetal Brain Male	brain
5	chr5:152004200-152014200	Weak transcription	Spleen	Spleen
6	chr5:152005000-152006600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr5:152005200-152006000	Enhancers	Placenta Amnion	Placenta Amnion
8	chr5:152005200-152006400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr5:152005600-152006000	Enhancers	Placenta	Placenta
10	chr5:152005600-152008000	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr5:152005600-152013800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr5:152005800-152012800	Weak transcription	Brain Germinal Matrix	brain

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