Variant report

Variant	rs906320
Chromosome Location	chr6:79519842-79519843
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	chr6:78450229..78450915-chr6:79519607..79520138,2	MCF-7	breast:
2	chr17:36762385..36763233-chr6:79519693..79520512,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PHIP-1	chr6:79519432-79521881	XLOC_005771

Extended variants
information (count: 55 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1021988	0.92[EUR][1000 genomes]
rs10943611	1.00[CEU][hapmap];0.88[CHB][hapmap];0.94[CHD][hapmap];0.93[GIH][hapmap];0.85[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.85[EUR][1000 genomes]
rs11547228	0.88[CHB][hapmap];0.85[JPT][hapmap];0.81[EUR][1000 genomes]
rs1283320	1.00[CEU][hapmap];0.88[CHB][hapmap];0.94[CHD][hapmap];0.93[GIH][hapmap];0.85[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.89[TSI][hapmap];0.88[EUR][1000 genomes]
rs1507148	0.88[EUR][1000 genomes]
rs1933238	0.85[EUR][1000 genomes]
rs1963080	0.81[EUR][1000 genomes]
rs2013420	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2089416	0.91[EUR][1000 genomes]
rs2135768	0.87[EUR][1000 genomes]
rs2135771	0.92[EUR][1000 genomes]
rs2135772	0.92[EUR][1000 genomes]
rs2321894	0.88[EUR][1000 genomes]
rs4327648	0.92[EUR][1000 genomes]
rs4640849	0.82[EUR][1000 genomes]
rs60527133	0.88[EUR][1000 genomes]
rs61517344	0.81[EUR][1000 genomes]
rs62424927	0.88[EUR][1000 genomes]
rs6454089	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.92[EUR][1000 genomes]
rs66509445	0.85[EUR][1000 genomes]
rs67073459	0.85[EUR][1000 genomes]
rs67221234	0.85[EUR][1000 genomes]
rs67799776	0.88[EUR][1000 genomes]
rs67815356	0.85[EUR][1000 genomes]
rs6936109	0.92[EUR][1000 genomes]
rs72902902	0.83[EUR][1000 genomes]
rs73464131	0.85[EUR][1000 genomes]
rs7767182	0.91[EUR][1000 genomes]
rs906319	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9341755	0.91[EUR][1000 genomes]
rs9343838	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9343846	0.92[EUR][1000 genomes]
rs9350789	0.89[ASW][hapmap];1.00[CEU][hapmap];0.88[CHB][hapmap];0.94[CHD][hapmap];0.93[GIH][hapmap];0.85[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.89[TSI][hapmap];0.92[EUR][1000 genomes]
rs9352673	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.92[EUR][1000 genomes]
rs9352674	0.92[EUR][1000 genomes]
rs9359355	1.00[CEU][hapmap];0.85[JPT][hapmap];0.91[EUR][1000 genomes]
rs9359358	0.91[EUR][1000 genomes]
rs9361468	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3433815	chr6:79443282-79536957	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
2	esv1795323	chr6:79483130-79526269	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
3	esv1795891	chr6:79483130-79526269	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	esv1799614	chr6:79483130-79526269	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
5	esv1799452	chr6:79483130-79536282	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
6	nsv5366	chr6:79497125-79537571	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
7	nsv508416	chr6:79510199-79538206	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
8	esv3474614	chr6:79519133-79525131	Enhancers Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
9	esv3474615	chr6:79519133-79525131	Enhancers Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
10	esv1794724	chr6:79519669-79526269	Enhancers Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
11	nsv970720	chr6:79519769-79535695	Flanking Active TSS Enhancers Weak transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
12	nsv604012	chr6:79519842-79524841	Enhancers Flanking Active TSS Weak transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
13	nsv604013	chr6:79519842-79524866	Enhancers Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
14	nsv604014	chr6:79519842-79525264	Enhancers Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
15	nsv604015	chr6:79519842-79525971	Enhancers Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
16	esv1799898	chr6:79519842-79526269	Enhancers Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
17	nsv604016	chr6:79519842-79526269	Enhancers Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs906320	IRAK1BP1	cis	lymphoblastoid	seeQTL
rs906320	IRAK1BP1	cis	Lymphoblastoid	GTEx
rs906320	IRAK1BP1	Cis_1M	lymphoblastoid	RTeQTL
rs906320	IRAK1BP1	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:79519000-79521800	Enhancers	HMEC	breast
2	chr6:79519200-79520200	Enhancers	NHEK	skin
3	chr6:79519200-79521400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:79519200-79521800	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr6:79519200-79521800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:79519600-79521400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr6:79519800-79521200	Enhancers	Liver	Liver
8	chr6:79519800-79521600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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