Variant report

Variant	rs783156
Chromosome Location	chr6:161231177-161231178
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	chr6:161227565..161229491-chr6:161229972..161232150,2	MCF-7	breast:

Extended variants
information (count: 78 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs1084656	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1084658	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11060	0.82[ASN][1000 genomes]
rs11902	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1247513	0.82[ASN][1000 genomes]
rs1247541	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1247551	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1247552	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1247553	1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs1247555	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1247556	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1247557	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1247558	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1247561	0.82[ASN][1000 genomes]
rs1247562	0.82[ASN][1000 genomes]
rs1247563	0.82[ASN][1000 genomes]
rs1247568	0.82[ASN][1000 genomes]
rs1247570	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1406890	0.82[ASN][1000 genomes]
rs1406891	0.84[CEU][hapmap];1.00[CHB][hapmap];0.81[GIH][hapmap];0.87[MEX][hapmap];0.82[ASN][1000 genomes]
rs1614840	0.82[ASN][1000 genomes]
rs1615527	0.83[EUR][1000 genomes]
rs1620921	0.82[ASN][1000 genomes]
rs1621801	0.82[ASN][1000 genomes]
rs1652455	0.82[EUR][1000 genomes]
rs1652463	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1652471	0.92[CEU][hapmap];1.00[CHB][hapmap];0.87[TSI][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1652482	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1652502	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1740432	0.87[EUR][1000 genomes]
rs1740442	0.82[ASN][1000 genomes]
rs1740443	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1740444	0.82[ASN][1000 genomes]
rs1830524	1.00[CHB][hapmap]
rs1892347	0.84[EUR][1000 genomes]
rs1892348	0.84[EUR][1000 genomes]
rs1937485	0.82[ASN][1000 genomes]
rs1937486	0.92[ASN][1000 genomes]
rs1937487	0.92[ASN][1000 genomes]
rs2255792	0.92[ASN][1000 genomes]
rs2465850	0.84[EUR][1000 genomes]
rs2465857	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2465859	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2489936	0.84[EUR][1000 genomes]
rs2489938	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2565724	0.92[CEU][hapmap];1.00[CHB][hapmap];0.87[TSI][hapmap]
rs2802356	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28711930	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2953494	0.84[ASN][1000 genomes]
rs2953495	0.84[ASN][1000 genomes]
rs2997094	0.92[ASN][1000 genomes]
rs2997095	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62435345	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs783159	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs783162	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs783169	0.80[EUR][1000 genomes]
rs783171	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs783173	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs783174	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs783175	0.82[ASN][1000 genomes]
rs783177	0.82[ASN][1000 genomes]
rs783178	0.82[ASN][1000 genomes]
rs783180	0.82[ASN][1000 genomes]
rs783182	0.82[ASN][1000 genomes]
rs9355842	0.83[EUR][1000 genomes]
rs9355844	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9456598	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9458048	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758089	chr6:160372244-161234665	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer 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 target site	30 gene(s)	inside rSNPs	diseases
2	esv2759484	chr6:160372244-161234665	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	esv3352911	chr6:161140543-161324358	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv830853	chr6:161180005-161376481	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv2422347	chr6:161211171-161442377	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv886815	chr6:161213047-161258658	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	esv1837673	chr6:161216608-161318009	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv886816	chr6:161225303-161286450	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv521351	chr6:161230801-161260530	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	esv1832769	chr6:161231177-161246303	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs783156	LOC729603	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161230600-161231400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr6:161230800-161231400	Enhancers	GM12878-XiMat	blood
3	chr6:161231000-161231400	Flanking Active TSS	A549	lung

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