Variant report

Variant	rs4796128
Chromosome Location	chr17:34226272-34226273
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:34219635..34221584-chr17:34223774..34226661,2	MCF-7	breast:
2	chr17:34215497..34218658-chr17:34224334..34228047,3	K562	blood:
3	chr17:34225195..34227611-chr17:34228200..34231085,2	K562	blood:

Variant related genes	Relation type
ENSG00000223255	Chromatin interaction

Extended variants
information (count: 76 )
Associated
traits (count: 10 )

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs11650409	0.85[MEX][hapmap]
rs11650668	0.84[AFR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11653051	0.85[MEX][hapmap]
rs11653282	0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11655533	0.85[MEX][hapmap]
rs11657908	0.80[MEX][hapmap]
rs11868244	0.81[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs11868785	0.80[CEU][hapmap];0.85[JPT][hapmap];0.85[MEX][hapmap]
rs1994182	0.83[CEU][hapmap];0.82[TSI][hapmap]
rs2107538	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];0.95[JPT][hapmap];0.92[LWK][hapmap];0.95[MEX][hapmap];0.86[MKK][hapmap];0.92[TSI][hapmap];0.85[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2251660	0.94[GIH][hapmap];0.96[TSI][hapmap];0.88[EUR][1000 genomes]
rs2280787	0.88[EUR][1000 genomes]
rs2280789	0.80[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];0.94[ASN][1000 genomes]
rs2291299	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2306630	0.80[CEU][hapmap];0.90[CHB][hapmap];0.89[CHD][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];0.86[ASN][1000 genomes]
rs2376287	0.88[EUR][1000 genomes]
rs2526327	0.94[GIH][hapmap];0.96[TSI][hapmap];0.88[EUR][1000 genomes]
rs2526328	0.87[EUR][1000 genomes]
rs2702947	0.84[EUR][1000 genomes]
rs2702948	0.85[EUR][1000 genomes]
rs2735475	0.95[GIH][hapmap];0.96[TSI][hapmap];0.88[EUR][1000 genomes]
rs28595279	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28722787	0.88[EUR][1000 genomes]
rs34369685	0.84[EUR][1000 genomes]
rs3760327	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3809769	0.85[MEX][hapmap]
rs3817655	1.00[ASW][hapmap];0.80[CEU][hapmap];0.90[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.92[LWK][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3826404	0.83[CEU][hapmap];0.93[TSI][hapmap]
rs4079183	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4239252	0.88[EUR][1000 genomes]
rs4251703	1.00[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];0.86[EUR][1000 genomes]
rs4251710	0.84[LWK][hapmap]
rs4251719	0.80[CEU][hapmap];0.90[CHB][hapmap];0.92[CHD][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];0.86[ASN][1000 genomes]
rs4251724	1.00[CEU][hapmap];0.81[CHB][hapmap];0.91[JPT][hapmap];0.83[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs4251737	0.84[ASN][1000 genomes]
rs4251749	0.83[AFR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4251769	0.80[CEU][hapmap];0.90[CHB][hapmap];0.92[CHD][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];0.86[ASN][1000 genomes]
rs4251787	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4251791	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4325615	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4795090	0.89[ASW][hapmap];0.91[CEU][hapmap];0.86[CHB][hapmap];0.92[GIH][hapmap];0.91[JPT][hapmap];0.81[LWK][hapmap];0.90[MEX][hapmap];0.92[TSI][hapmap];0.80[EUR][1000 genomes]
rs4795093	0.86[ASN][1000 genomes]
rs4795096	0.80[CEU][hapmap];0.90[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.80[MEX][hapmap];0.95[ASN][1000 genomes]
rs4795101	0.87[EUR][1000 genomes]
rs4796105	0.91[CEU][hapmap];0.92[TSI][hapmap]
rs4796112	0.85[MEX][hapmap]
rs4796116	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4796123	0.80[CEU][hapmap]
rs4796133	0.88[EUR][1000 genomes]
rs4796134	0.88[EUR][1000 genomes]
rs4796136	0.88[EUR][1000 genomes]
rs4796137	0.88[EUR][1000 genomes]
rs4796138	0.95[GIH][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes]
rs55950249	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6505496	0.89[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];0.92[GIH][hapmap];0.91[JPT][hapmap];0.81[LWK][hapmap];0.90[MEX][hapmap];0.92[TSI][hapmap];0.81[EUR][1000 genomes]
rs6505498	0.81[EUR][1000 genomes]
rs7211393	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7213636	0.88[EUR][1000 genomes]
rs7215845	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8066406	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs8069014	0.86[AFR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8080959	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9303691	0.85[MEX][hapmap]
rs9303692	0.80[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];0.90[ASN][1000 genomes]
rs9754	0.95[GIH][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes]
rs9889874	0.80[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];0.91[ASN][1000 genomes]
rs9890583	0.88[EUR][1000 genomes]
rs9898152	0.85[MEX][hapmap]
rs9899881	0.88[EUR][1000 genomes]
rs9900563	0.95[ASN][1000 genomes]
rs9908011	0.84[MEX][hapmap]
rs9908928	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9909416	0.84[JPT][hapmap];0.91[ASN][1000 genomes]
rs9913488	0.84[MEX][hapmap]
rs9913559	0.89[GIH][hapmap];0.88[EUR][1000 genomes]
rs9914401	0.85[MEX][hapmap]

mRNA abundance (count:10)

SNP	Gene	Cis/trans	Tissue	Source
rs4796128	C17orf50	cis	cerebellum	SCAN
rs4796128	RDM1	cis	parietal	SCAN
rs4796128	CCL5	cis	lymphoblastoid	seeQTL
rs4796128	RDM1	cis	Lymphoblastoid	GTEx
rs4796128	TAF15	Cis_1M	lymphoblastoid	RTeQTL
rs4796128	RDM1	cis	lymphoblastoid	seeQTL
rs4796128	RDM1	cis	multi-tissue	Pritchard
rs4796128	AMAC1	cis	cerebellum	SCAN
rs4796128	RAD52B	cis	multi-tissue	Pritchard
rs4796128	TAF15	cis	normal skin	skin_eQTL

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:34217600-34227600	Weak transcription	NH-A	brain
2	chr17:34218400-34227600	Weak transcription	Fetal Intestine Small	intestine
3	chr17:34219600-34227400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr17:34222400-34230200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr17:34222600-34227200	Enhancers	Primary T killer memory cells from peripheral blood	blood
6	chr17:34223000-34230400	Enhancers	Fetal Thymus	thymus
7	chr17:34223200-34227600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr17:34223400-34227400	Weak transcription	HSMMtube	muscle
9	chr17:34223400-34229200	Enhancers	Primary T helper naive cells from peripheral blood	blood
10	chr17:34223600-34227400	Weak transcription	Osteobl	bone
11	chr17:34223800-34226600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr17:34223800-34227400	Enhancers	Monocytes-CD14+_RO01746	blood
13	chr17:34223800-34228200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr17:34224400-34227600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr17:34224400-34227800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
16	chr17:34224400-34227800	Enhancers	Primary T helper cells PMA-I stimulated	--
17	chr17:34224800-34226400	Enhancers	Primary monocytes fromperipheralblood	blood
18	chr17:34225000-34227200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr17:34225000-34227400	Enhancers	NHEK	skin
20	chr17:34225000-34227600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr17:34225000-34230000	Enhancers	Primary T cells from cord blood	blood
22	chr17:34225400-34226600	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr17:34225400-34231200	Enhancers	Placenta	Placenta
24	chr17:34225600-34227400	Weak transcription	Fetal Kidney	kidney
25	chr17:34225800-34227800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr17:34226000-34227000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr17:34226000-34227400	Weak transcription	Primary hematopoietic stem cells	blood
28	chr17:34226000-34227400	Weak transcription	K562	blood
29	chr17:34226000-34227600	Weak transcription	A549	lung
30	chr17:34226000-34231000	Enhancers	Primary T cells fromperipheralblood	blood
31	chr17:34226200-34227200	Weak transcription	Duodenum Mucosa	Duodenum
32	chr17:34226200-34227200	Weak transcription	Fetal Muscle Leg	muscle
33	chr17:34226200-34227400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
34	chr17:34226200-34227600	Enhancers	Dnd41	blood
35	chr17:34226200-34228200	Enhancers	Placenta Amnion	Placenta Amnion
36	chr17:34226200-34229400	Weak transcription	Thymus	Thymus

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