Variant report

Variant	rs6892437
Chromosome Location	chr5:118179104-118179105
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10447266	0.81[AFR][1000 genomes]
rs10519564	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11959589	1.00[CHB][hapmap]
rs12109156	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12109252	0.89[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes]
rs12187606	1.00[JPT][hapmap]
rs1510971	1.00[CHB][hapmap]
rs1567520	0.89[EUR][1000 genomes]
rs17132677	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17144552	1.00[CHB][hapmap]
rs17144715	1.00[JPT][hapmap]
rs17144716	1.00[JPT][hapmap]
rs17144806	1.00[JPT][hapmap]
rs17144824	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs17144836	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs17144872	1.00[CHB][hapmap]
rs17144877	1.00[CHB][hapmap]
rs17144885	1.00[CHB][hapmap]
rs17381247	0.89[CEU][hapmap]
rs17440213	0.89[CEU][hapmap];1.00[CHB][hapmap];0.83[EUR][1000 genomes]
rs2029036	0.89[CEU][hapmap]
rs2084460	1.00[CHB][hapmap]
rs2217310	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2376854	0.89[EUR][1000 genomes]
rs2377127	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs28640997	0.85[EUR][1000 genomes]
rs34045550	0.85[ASN][1000 genomes]
rs4392657	1.00[CHB][hapmap]
rs4634381	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs4895183	1.00[JPT][hapmap]
rs55671162	0.85[ASN][1000 genomes]
rs56034428	0.89[EUR][1000 genomes]
rs56191796	0.96[ASN][1000 genomes]
rs56406364	0.96[ASN][1000 genomes]
rs57186800	0.81[EUR][1000 genomes]
rs57503789	0.83[EUR][1000 genomes]
rs57581390	0.96[ASN][1000 genomes]
rs58737380	0.87[EUR][1000 genomes]
rs60688439	0.89[EUR][1000 genomes]
rs6860946	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6862297	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes]
rs6863802	1.00[CHB][hapmap]
rs6870923	1.00[CHB][hapmap]
rs6871241	1.00[JPT][hapmap]
rs6874109	1.00[JPT][hapmap]
rs6874399	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6880144	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6896086	0.87[EUR][1000 genomes]
rs73789435	0.89[EUR][1000 genomes]
rs73790355	0.85[EUR][1000 genomes]
rs73792413	0.87[EUR][1000 genomes]
rs73792414	0.87[EUR][1000 genomes]
rs73792419	0.92[ASN][1000 genomes]
rs767935	0.81[ASN][1000 genomes]
rs7706037	1.00[CHB][hapmap]
rs7710339	0.88[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs7721907	1.00[JPT][hapmap]
rs7724403	0.90[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs7724753	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[EUR][1000 genomes]
rs7734815	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7737716	1.00[CHB][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	nsv882767	chr5:117931730-118385691	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv599562	chr5:118122504-118230640	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv882771	chr5:118170135-118230640	Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv882772	chr5:118173127-118230640	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv882773	chr5:118175640-118241854	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6892437	FAM170A	cis	frontal cortex	BrainEAC

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:118160200-118180200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr5:118167800-118186400	Weak transcription	Liver	Liver
3	chr5:118169600-118180800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr5:118169600-118208600	Weak transcription	Aorta	Aorta
5	chr5:118172200-118188600	Weak transcription	Primary T cells from cord blood	blood
6	chr5:118175400-118186200	Weak transcription	Primary B cells from cord blood	blood
7	chr5:118176800-118179600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr5:118177400-118180200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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