Variant report

Variant	rs6895915
Chromosome Location	chr5:96705762-96705763
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CTD-2215E18.1.1-5	chr5:96704480-96706125	NONHSAT102928

Extended variants
information (count: 73 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10041189	0.97[ASN][1000 genomes]
rs10044182	0.88[CEU][hapmap]
rs10044469	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10055987	0.87[ASN][1000 genomes]
rs10060043	0.94[ASN][1000 genomes]
rs10063725	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10073997	0.97[ASN][1000 genomes]
rs10074671	0.94[ASN][1000 genomes]
rs10077749	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10515256	0.85[CEU][hapmap]
rs11135509	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11135510	0.94[ASN][1000 genomes]
rs11135512	0.92[ASN][1000 genomes]
rs1113563	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11744867	0.97[ASN][1000 genomes]
rs11747458	0.96[ASN][1000 genomes]
rs12332590	0.96[ASN][1000 genomes]
rs12521282	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs13167465	0.96[ASN][1000 genomes]
rs13171520	0.84[CEU][hapmap]
rs13186882	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13357559	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1423501	0.85[CEU][hapmap];0.89[TSI][hapmap]
rs1423502	0.88[CEU][hapmap]
rs1423503	0.84[CEU][hapmap]
rs1423504	0.85[CEU][hapmap]
rs17087524	0.88[ASN][1000 genomes]
rs17630601	0.85[CEU][hapmap];0.89[TSI][hapmap]
rs1845652	0.89[CEU][hapmap]
rs188344	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2132225	0.97[ASN][1000 genomes]
rs2220200	0.96[ASN][1000 genomes]
rs28842623	0.89[ASN][1000 genomes]
rs291806	0.92[EUR][1000 genomes]
rs291807	0.83[EUR][1000 genomes]
rs291808	0.83[EUR][1000 genomes]
rs291811	0.83[EUR][1000 genomes]
rs291812	0.83[EUR][1000 genomes]
rs291817	0.81[ASN][1000 genomes]
rs291819	0.82[ASN][1000 genomes]
rs34985391	0.80[EUR][1000 genomes]
rs3891859	0.84[AMR][1000 genomes]
rs4242236	0.92[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4362964	0.97[ASN][1000 genomes]
rs4395658	0.97[ASN][1000 genomes]
rs4607369	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4869324	0.89[CEU][hapmap]
rs56050592	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6556978	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6859739	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6861811	0.88[CEU][hapmap]
rs6865811	0.94[ASN][1000 genomes]
rs6871255	0.92[ASN][1000 genomes]
rs6885295	0.93[ASN][1000 genomes]
rs6891107	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6891837	0.94[ASN][1000 genomes]
rs6893895	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6898761	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72779902	0.96[ASN][1000 genomes]
rs72781909	0.88[ASN][1000 genomes]
rs7718035	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7721830	0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7721857	0.82[EUR][1000 genomes];0.97[ASN][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	nsv598964	chr5:96612401-96705762	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6895915	ARSK	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:96705200-96705800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

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