Variant report

Variant	rs6852247
Chromosome Location	chr4:74397204-74397205
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AFM-1	chr4:74396768-74398790	XLOC_003572

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10003753	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10018515	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10018813	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10018842	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10021754	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10033598	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1105322	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11941251	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11945939	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1247657	0.90[EUR][1000 genomes]
rs1247675	0.90[EUR][1000 genomes]
rs1268486	0.90[EUR][1000 genomes]
rs1528908	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1729700	0.90[EUR][1000 genomes]
rs1745299	0.90[EUR][1000 genomes]
rs2367156	1.00[EUR][1000 genomes]
rs2367158	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28840157	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41438047	1.00[EUR][1000 genomes]
rs4453908	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56268374	1.00[EUR][1000 genomes]
rs60557340	0.95[EUR][1000 genomes]
rs6815239	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6815771	1.00[EUR][1000 genomes]
rs6820449	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6822028	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6822674	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6851809	0.86[EUR][1000 genomes]
rs6852024	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6852471	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6856952	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7690011	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9995523	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9995544	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9996759	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3430875	chr4:74243646-74420354	Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1001725	chr4:74354050-74860924	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv530126	chr4:74376622-74843892	Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	esv3364178	chr4:74383966-74400177	Enhancers Bivalent Enhancer Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:74374600-74399000	Weak transcription	Fetal Intestine Large	intestine
2	chr4:74390400-74399800	Weak transcription	Fetal Intestine Small	intestine
3	chr4:74394200-74400000	Genic enhancers	Liver	Liver

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