Variant report

Variant	rs291824
Chromosome Location	chr5:96754510-96754511
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10077749	0.81[EUR][1000 genomes]
rs11135514	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1113563	0.81[EUR][1000 genomes]
rs11741545	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12517149	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1485454	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1485459	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1485469	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1825534	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs188344	0.81[EUR][1000 genomes]
rs2351732	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2643512	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs291801	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs291803	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs291806	0.81[ASN][1000 genomes]
rs291807	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs291808	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs291811	0.85[EUR][1000 genomes]
rs291812	0.85[EUR][1000 genomes]
rs291823	0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34985391	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4031871	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4291040	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4574572	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4869359	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs66469149	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs67144079	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6874909	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7701910	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7718035	0.80[EUR][1000 genomes]
rs923107	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs923108	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs971865	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv598962	chr5:96057891-96893164	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv1019790	chr5:96471680-96980633	Weak transcription ZNF genes & repeats Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv537812	chr5:96471680-96980633	ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv534326	chr5:96531217-97283481	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv882394	chr5:96538585-97108559	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	nsv1032548	chr5:96565121-97046804	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv537813	chr5:96565121-97046804	Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv830415	chr5:96597763-96764157	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv1025654	chr5:96613448-96817528	ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
10	nsv1025345	chr5:96747650-96777286	Weak transcription Enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:96753200-96757000	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr5:96753400-96756600	Enhancers	GM12878-XiMat	blood
3	chr5:96753400-96757000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr5:96753600-96755200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr5:96753800-96754600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr5:96754000-96754800	Enhancers	Brain Germinal Matrix	brain

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