Variant report

Variant	rs41319550
Chromosome Location	chr14:42200279-42200280
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10131184	1.00[JPT][hapmap]
rs12879030	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1597049	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1597050	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17181601	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17181608	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17181615	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17181622	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17181636	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17781361	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2415688	1.00[JPT][hapmap]
rs4584739	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4586337	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4603462	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4624078	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs55718011	0.91[ASN][1000 genomes]
rs56084127	0.91[ASN][1000 genomes]
rs57676929	0.91[ASN][1000 genomes]
rs57774630	0.91[ASN][1000 genomes]
rs58373729	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58644188	0.91[ASN][1000 genomes]
rs58694176	0.91[ASN][1000 genomes]
rs58844543	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58922111	0.91[ASN][1000 genomes]
rs59082466	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs59496647	0.91[ASN][1000 genomes]
rs60296848	0.91[ASN][1000 genomes]
rs61990337	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61990338	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs61990339	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs61990342	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs61990343	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61990345	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61990346	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61990347	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs61990349	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs61992395	0.91[ASN][1000 genomes]
rs61992396	0.91[ASN][1000 genomes]
rs61992397	0.91[ASN][1000 genomes]
rs61992398	0.91[ASN][1000 genomes]
rs61992399	0.91[ASN][1000 genomes]
rs61992400	0.91[ASN][1000 genomes]
rs72686527	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72686528	0.81[AMR][1000 genomes];0.96[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	nsv1047300	chr14:41671653-42361098	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv533968	chr14:41882101-42327882	Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv2758353	chr14:42045873-42259511	Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	esv2759983	chr14:42045873-42259511	ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv901738	chr14:42145461-42302552	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv901739	chr14:42194373-42270916	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs41319550	LRFN5	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:42198400-42202600	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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