Variant report

Variant	rs774887
Chromosome Location	chr12:58034835-58034836
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:58030492..58032233-chr12:58033542..58035528,2	K562	blood:
2	chr12:58033421..58035422-chr12:58138952..58140845,2	K562	blood:
3	chr12:58026791..58028467-chr12:58032868..58035456,2	K562	blood:

Variant related genes	Relation type
ENSG00000135454	Chromatin interaction
ENSG00000135452	Chromatin interaction

Extended variants
information (count: 93 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10082911	0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10083154	0.96[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10783836	0.92[EUR][1000 genomes]
rs10783842	0.89[EUR][1000 genomes]
rs10783843	0.84[EUR][1000 genomes]
rs10783844	0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1082502	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1082503	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10876993	0.96[CEU][hapmap];0.86[CHB][hapmap];0.88[JPT][hapmap];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10877001	0.96[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes]
rs10877006	0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10877007	0.93[EUR][1000 genomes]
rs10877008	0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1092472	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11172277	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11172306	0.93[EUR][1000 genomes]
rs12302351	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12302451	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12314562	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12316021	0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12809742	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1585781	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1628552	0.88[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];0.95[EUR][1000 genomes]
rs1629032	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1633360	0.80[ASN][1000 genomes]
rs1678504	0.92[CEU][hapmap];0.84[CHB][hapmap];0.94[JPT][hapmap];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1678505	0.89[EUR][1000 genomes]
rs1678511	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1678512	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1678513	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1678515	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1678516	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1678519	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1678520	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1678522	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1678527	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1678528	0.83[ASN][1000 genomes]
rs1678529	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1678530	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1678531	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1678532	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1678534	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1678539	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1678540	1.00[CEU][hapmap];0.85[CHB][hapmap];0.94[JPT][hapmap]
rs1689584	0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1689585	0.96[CEU][hapmap];0.86[CHB][hapmap];0.88[JPT][hapmap];0.95[EUR][1000 genomes]
rs1689586	0.94[EUR][1000 genomes]
rs1689592	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1689594	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1689595	0.96[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1689596	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1689597	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1689600	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1689601	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1689603	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1689604	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1871417	0.96[CEU][hapmap];0.91[CHB][hapmap];0.88[JPT][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2169987	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2277322	0.88[CEU][hapmap];0.86[CHB][hapmap];0.88[JPT][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs238516	0.88[JPT][hapmap]
rs2619441	0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2619466	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2640629	0.96[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap]
rs2640630	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2640631	0.96[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2928053	0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2928054	0.90[EUR][1000 genomes]
rs2928055	0.92[EUR][1000 genomes]
rs2928061	0.95[EUR][1000 genomes]
rs2928062	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2928064	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3825078	0.92[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4760164	0.95[EUR][1000 genomes]
rs4760165	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4760168	0.92[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs701006	0.86[CHB][hapmap];0.94[JPT][hapmap];0.80[ASN][1000 genomes]
rs703832	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7136269	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7314152	0.96[CEU][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs774888	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs774890	0.96[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap]
rs774891	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7976852	0.87[CEU][hapmap];0.93[EUR][1000 genomes]
rs7979246	0.88[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs799575	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs810204	0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1038741	chr12:57877355-58174506	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	126 gene(s)	inside rSNPs	diseases
2	nsv541503	chr12:57877355-58174506	Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	126 gene(s)	inside rSNPs	diseases
3	nsv541504	chr12:57958701-58062311	Bivalent Enhancer Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv511490	chr12:58026786-58035706	Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	diseases
5	esv1802058	chr12:58028127-58062667	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	17 gene(s)	inside rSNPs	diseases
6	nsv559044	chr12:58028671-58065448	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	14 gene(s)	inside rSNPs	diseases
7	nsv975499	chr12:58034418-58068937	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs774887	FAM119B	Cis_1M	lymphoblastoid	RTeQTL
rs774887	DKFZP586D0919	cis	multi-tissue	Pritchard
rs774887	SLC26A10	cis	Heart Left Ventricle	GTEx
rs774887	TSFM	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:58032600-58036000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
2	chr12:58034800-58036600	Enhancers	K562	blood

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