Variant report

Variant	rs566164
Chromosome Location	chr6:109506461-109506462
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:109505830..109510944-chr6:109700470..109705597,10	K562	blood:
2	chr6:109505598..109510546-chr6:109701236..109705841,8	K562	blood:
3	chr6:109502825..109510460-chr6:109701859..109705678,15	MCF-7	breast:
4	chr6:109505984..109508437-chr6:109617883..109620389,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260273	Chromatin interaction
ENSG00000135535	Chromatin interaction

Extended variants
information (count: 85 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs11153161	0.93[ASN][1000 genomes]
rs11153165	0.95[CEU][hapmap];0.82[EUR][1000 genomes]
rs11153166	0.95[CEU][hapmap];0.88[TSI][hapmap];0.82[EUR][1000 genomes]
rs11153167	0.95[CEU][hapmap];0.88[TSI][hapmap];0.82[EUR][1000 genomes]
rs11153168	0.87[CEU][hapmap]
rs11964178	0.95[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11966072	0.87[CEU][hapmap];0.88[TSI][hapmap]
rs1271693	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13196219	0.87[CEU][hapmap]
rs13196590	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap];0.89[ASN][1000 genomes]
rs13200047	0.87[CEU][hapmap];0.85[TSI][hapmap]
rs13202939	0.81[TSI][hapmap]
rs13211313	0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs13211944	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1741923	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34774766	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs351716	0.86[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs351717	0.86[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap];0.83[TSI][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs351718	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs351719	0.91[CEU][hapmap];0.95[CHB][hapmap];0.84[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs351720	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs351721	0.90[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs351722	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs351723	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs351724	0.83[CEU][hapmap]
rs351725	0.83[CEU][hapmap]
rs351726	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs351727	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs351728	0.83[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs351730	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs351731	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs351732	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs351735	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351736	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs351737	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs351744	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs351746	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs351747	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs351750	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs351751	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs353052	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs377436	0.91[CEU][hapmap];0.95[CHB][hapmap];0.87[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs388526	0.93[ASN][1000 genomes]
rs396635	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs408944	0.89[ASN][1000 genomes]
rs410449	0.93[ASN][1000 genomes]
rs412754	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs418093	0.91[ASN][1000 genomes]
rs421790	0.93[ASN][1000 genomes]
rs422113	0.91[CEU][hapmap];0.95[CHB][hapmap];0.84[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs429534	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4301336	0.81[TSI][hapmap]
rs436880	0.92[ASN][1000 genomes]
rs4427037	0.83[CEU][hapmap]
rs446974	0.91[CEU][hapmap];0.95[CHB][hapmap];0.84[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs448496	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs449736	0.91[CEU][hapmap];0.95[CHB][hapmap];0.84[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4548045	0.85[EUR][1000 genomes]
rs55677234	0.81[EUR][1000 genomes]
rs59673	0.91[CEU][hapmap];0.95[CHB][hapmap];0.84[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6919423	0.83[CEU][hapmap];0.95[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6925339	1.00[CEU][hapmap];0.95[CHB][hapmap];0.81[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7773490	0.95[CEU][hapmap];0.82[EUR][1000 genomes]
rs830552	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs830554	0.91[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs830556	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9320278	0.89[ASN][1000 genomes]
rs9374069	0.82[CEU][hapmap]
rs9374070	0.83[CEU][hapmap]
rs9374071	0.83[CEU][hapmap]
rs9374072	0.83[CEU][hapmap]
rs9374076	0.82[EUR][1000 genomes]
rs9374081	0.86[CEU][hapmap]
rs9384701	0.95[CHB][hapmap];0.81[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.84[TSI][hapmap];0.90[ASN][1000 genomes]
rs9384703	0.83[CEU][hapmap]
rs9386774	0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9386775	0.95[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9386781	0.83[CEU][hapmap]
rs9386784	0.83[CEU][hapmap]
rs9398191	0.83[CEU][hapmap]
rs9398192	0.83[CEU][hapmap]
rs9400265	0.82[EUR][1000 genomes]
rs9487049	0.82[EUR][1000 genomes]
rs949881	0.83[CEU][hapmap]
rs949882	0.83[CEU][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs566164	ATG5	cis	cerebellum	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109504200-109509200	Weak transcription	Liver	Liver
2	chr6:109504200-109509200	Weak transcription	Brain Angular Gyrus	brain
3	chr6:109504200-109511200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr6:109504400-109506600	Enhancers	Primary B cells from peripheral blood	blood
5	chr6:109504400-109507000	Enhancers	Primary B cells from cord blood	blood
6	chr6:109504400-109508200	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr6:109504600-109507000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr6:109504600-109508600	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:109504600-109508800	Weak transcription	Adipose Nuclei	Adipose
10	chr6:109504800-109509200	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr6:109504800-109509400	Enhancers	Primary hematopoietic stem cells	blood
12	chr6:109505000-109511400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr6:109505200-109507800	Weak transcription	Stomach Mucosa	stomach
14	chr6:109505400-109507800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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