Variant report

Variant	rs4711560
Chromosome Location	chr6:38848786-38848787
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:38760562..38763283-chr6:38847483..38849183,2	K562	blood:

Extended variants
information (count: 40 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs1564378	1.00[CEU][hapmap];0.94[YRI][hapmap];0.82[AFR][1000 genomes]
rs1678742	0.87[CHD][hapmap];0.93[GIH][hapmap]
rs1929900	1.00[CHB][hapmap]
rs2395709	0.82[CHB][hapmap]
rs35696175	0.81[ASN][1000 genomes]
rs3918448	0.85[CHB][hapmap]
rs4380739	0.91[CHD][hapmap];0.91[GIH][hapmap];0.81[ASN][1000 genomes]
rs4443498	0.81[ASN][1000 genomes]
rs4711558	0.91[CHD][hapmap];0.93[GIH][hapmap];0.81[ASN][1000 genomes]
rs4711559	0.81[ASN][1000 genomes]
rs4714192	0.81[TSI][hapmap]
rs4714196	0.85[CHB][hapmap]
rs4714197	1.00[CHB][hapmap]
rs4714200	1.00[CHB][hapmap]
rs6458079	0.81[ASN][1000 genomes]
rs6458080	0.91[CHD][hapmap];0.93[GIH][hapmap];0.81[ASN][1000 genomes]
rs6458087	1.00[CHB][hapmap]
rs6905467	1.00[CHB][hapmap]
rs6928176	0.85[CHB][hapmap]
rs6940724	1.00[CHB][hapmap]
rs7357080	1.00[CHB][hapmap]
rs7746153	0.81[ASN][1000 genomes]
rs7752004	1.00[CHB][hapmap]
rs862422	0.82[CHD][hapmap]
rs9296265	0.91[CHD][hapmap];0.93[GIH][hapmap]
rs9357290	0.91[CHD][hapmap];0.83[GIH][hapmap]
rs9366982	0.81[ASN][1000 genomes]
rs9369091	1.00[CHB][hapmap]
rs9380789	0.91[CHD][hapmap];0.93[GIH][hapmap]
rs9380791	0.80[GIH][hapmap]
rs9380802	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs9380804	0.83[ASW][hapmap];1.00[CEU][hapmap];0.93[LWK][hapmap];0.95[MEX][hapmap];0.98[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap]
rs9394543	1.00[CEU][hapmap];0.84[YRI][hapmap]
rs9394546	0.81[TSI][hapmap]
rs9394550	0.91[CHD][hapmap];0.93[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv830643	chr6:38726675-38905589	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1028088	chr6:38821047-39163549	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv538205	chr6:38821047-39163549	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv885821	chr6:38843970-39039503	Bivalent Enhancer Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4711560	LRFN2	cis	cerebellum	SCAN
rs4711560	TREM2	cis	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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