Variant report

Variant	rs7173852
Chromosome Location	chr15:82461853-82461854
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	chr15:82375697..82377432-chr15:82459942..82461886,2	K562	blood:
2	chr15:82460625..82462392-chr15:82463596..82466044,2	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1045508	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11073035	0.96[ASN][1000 genomes]
rs1174543	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1174546	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11855089	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11855144	0.93[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11857208	0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12443224	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12905578	0.89[ASN][1000 genomes]
rs13380317	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13380319	0.92[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1392976	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1501371	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1501372	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1846910	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1846911	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2047678	0.97[ASN][1000 genomes]
rs2088858	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2455717	0.82[ASN][1000 genomes]
rs28540744	0.91[ASN][1000 genomes]
rs2867577	0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2867579	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3858954	0.90[ASN][1000 genomes]
rs4270132	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4344697	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4778982	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6495642	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6495643	0.93[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6495647	0.86[ASN][1000 genomes]
rs7164362	0.96[ASN][1000 genomes]
rs7166570	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7169961	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7173339	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7176075	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7180584	0.93[CEU][hapmap];0.80[CHB][hapmap];0.96[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7181655	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8025353	0.88[ASN][1000 genomes]
rs8033050	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs8033831	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8037224	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8041868	0.93[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8041924	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8042464	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8043108	0.92[ASN][1000 genomes]
rs867370	0.82[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs867371	0.82[CEU][hapmap];0.96[CHB][hapmap];0.96[JPT][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs881308	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9944197	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv457212	chr15:82454283-82573255	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv570243	chr15:82454283-82573255	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv457213	chr15:82456227-82573255	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv570244	chr15:82456227-82573255	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv570245	chr15:82456227-82591082	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv977858	chr15:82458762-82463635	Weak transcription Strong transcription Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7173852	RP13-608F4.1	cis	Esophagus Mucosa	GTEx

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:82419200-82470600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr15:82432600-82476400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr15:82432600-82552800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
4	chr15:82439800-82465600	Weak transcription	K562	blood
5	chr15:82441400-82469600	Weak transcription	Fetal Brain Male	brain
6	chr15:82444400-82465200	Weak transcription	Brain Germinal Matrix	brain
7	chr15:82444600-82495800	Weak transcription	Fetal Intestine Small	intestine
8	chr15:82450200-82463400	Weak transcription	Hela-S3	cervix
9	chr15:82451000-82469800	Weak transcription	Psoas Muscle	Psoas
10	chr15:82452200-82463200	Weak transcription	Fetal Heart	heart
11	chr15:82452600-82470600	Weak transcription	Esophagus	oesophagus
12	chr15:82453200-82464000	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr15:82453400-82464600	Weak transcription	NHEK	skin
14	chr15:82455400-82462600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr15:82455400-82463400	Weak transcription	Right Ventricle	heart
16	chr15:82455400-82464600	Weak transcription	HMEC	breast
17	chr15:82455400-82466600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr15:82455400-82466800	Weak transcription	Brain Substantia Nigra	brain
19	chr15:82455400-82475200	Weak transcription	Brain Hippocampus Middle	brain
20	chr15:82455400-82475200	Weak transcription	Pancreas	Pancrea
21	chr15:82455600-82463400	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr15:82455600-82464600	Weak transcription	Placenta	Placenta
23	chr15:82455600-82469200	Weak transcription	Brain Anterior Caudate	brain
24	chr15:82455600-82475200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr15:82455800-82464600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr15:82455800-82467200	Weak transcription	Spleen	Spleen
27	chr15:82455800-82469800	Weak transcription	Ovary	ovary
28	chr15:82456000-82463400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr15:82456000-82469800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr15:82456000-82475800	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr15:82456000-82475800	Weak transcription	Lung	lung
32	chr15:82456000-82510000	Weak transcription	Thymus	Thymus
33	chr15:82456200-82469000	Weak transcription	Osteobl	bone
34	chr15:82456200-82469600	Weak transcription	HSMMtube	muscle
35	chr15:82456200-82470000	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr15:82456200-82475200	Weak transcription	Brain Inferior Temporal Lobe	brain
37	chr15:82456200-82475600	Weak transcription	Fetal Brain Female	brain
38	chr15:82456400-82469400	Weak transcription	HSMM	muscle
39	chr15:82456400-82470600	Weak transcription	Left Ventricle	heart
40	chr15:82456400-82473000	Weak transcription	Fetal Intestine Large	intestine
41	chr15:82456400-82474200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr15:82456400-82475200	Weak transcription	Fetal Muscle Leg	muscle
43	chr15:82456400-82475200	Weak transcription	Stomach Smooth Muscle	stomach
44	chr15:82456400-82475400	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr15:82456400-82475800	Weak transcription	Monocytes-CD14+_RO01746	blood
46	chr15:82456400-82480600	Weak transcription	HUES64 Cell Line	embryonic stem cell
47	chr15:82456400-82487000	Weak transcription	Primary B cells from peripheral blood	blood
48	chr15:82456400-82502200	Weak transcription	Primary T cells fromperipheralblood	blood
49	chr15:82456400-82502400	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr15:82456400-82502600	Weak transcription	Duodenum Mucosa	Duodenum

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