Variant report

Variant	rs3817656
Chromosome Location	chr17:34199162-34199163
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:34196970..34199570-chr17:34207098..34208624,2	K562	blood:

Variant related genes	Relation type
ENSG00000161570	Chromatin interaction

Extended variants
information (count: 121 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:121)

rs_ID	r²[population]
rs11080360	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11080361	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11080362	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11650409	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11652192	0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11652536	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11653016	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11653051	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11653204	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11654713	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11655533	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11656556	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11657908	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11658222	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11868801	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11869976	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16971670	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2014839	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2107540	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2251660	0.83[ASN][1000 genomes]
rs2280787	0.81[ASN][1000 genomes]
rs2306630	0.87[EUR][1000 genomes]
rs2376287	0.83[ASN][1000 genomes]
rs2526327	0.82[ASN][1000 genomes]
rs2735475	0.81[ASN][1000 genomes]
rs28550999	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28722787	0.83[ASN][1000 genomes]
rs28739295	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28912068	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3760326	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3760447	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3785764	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3809769	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4251702	0.84[EUR][1000 genomes]
rs4251727	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4251729	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4251751	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4251752	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4251769	0.85[EUR][1000 genomes]
rs4251788	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4795089	0.83[ASN][1000 genomes]
rs4795091	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4795092	0.85[AFR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4795093	0.87[EUR][1000 genomes]
rs4795095	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4795097	0.87[EUR][1000 genomes]
rs4795099	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4795100	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4796109	0.89[EUR][1000 genomes]
rs4796112	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4796113	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4796114	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4796115	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4796118	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4796119	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4796120	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4796123	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4796124	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4796125	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4796126	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4796127	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4796129	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4796130	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4796131	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4796133	0.81[ASN][1000 genomes]
rs4796134	0.83[ASN][1000 genomes]
rs4796136	0.83[ASN][1000 genomes]
rs4796137	0.83[ASN][1000 genomes]
rs56294660	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56344830	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59247105	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59338510	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7213636	0.83[ASN][1000 genomes]
rs9303691	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9303692	0.90[EUR][1000 genomes]
rs9303693	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9789051	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9889274	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9889874	0.87[EUR][1000 genomes]
rs9889977	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9891064	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9893004	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9894083	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9894314	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9894799	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9896265	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9896658	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9897665	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9898132	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9898152	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9899215	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9899866	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9899870	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9899881	0.82[ASN][1000 genomes]
rs9900236	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9900473	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9901195	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9901418	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9903590	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9904675	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9907121	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9907145	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9907295	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9907588	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9908011	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9908525	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9908907	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9909050	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9909416	0.90[EUR][1000 genomes]
rs9911016	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9911598	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9912049	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9912284	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9912552	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9912571	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9912793	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9912894	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9913488	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9913559	0.81[ASN][1000 genomes]
rs9914401	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9914468	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3817656	TAF15	Cis_1M	lymphoblastoid	RTeQTL
rs3817656	RDM1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:34175600-34202400	Weak transcription	Primary T helper cells PMA-I stimulated	--
2	chr17:34177200-34202400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr17:34179000-34203800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr17:34180800-34202000	Weak transcription	GM12878-XiMat	blood
5	chr17:34185800-34206800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr17:34186800-34201600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr17:34192200-34218000	Weak transcription	Stomach Smooth Muscle	stomach
8	chr17:34192400-34213200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr17:34193800-34201600	Weak transcription	HSMMtube	muscle
10	chr17:34194000-34205800	Weak transcription	K562	blood
11	chr17:34197800-34202400	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
12	chr17:34198000-34199400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
13	chr17:34198000-34200000	Enhancers	Primary T cells from cord blood	blood
14	chr17:34198200-34199400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
15	chr17:34198200-34199400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr17:34198200-34199400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr17:34198200-34199600	Enhancers	Spleen	Spleen
18	chr17:34198200-34202200	Genic enhancers	Primary T cells fromperipheralblood	blood
19	chr17:34198400-34202400	Weak transcription	Primary T helper cells fromperipheralblood	blood
20	chr17:34198400-34205400	Weak transcription	Pancreas	Pancrea
21	chr17:34198600-34202200	Weak transcription	Adipose Nuclei	Adipose
22	chr17:34198600-34202400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr17:34198600-34202400	Weak transcription	Primary monocytes fromperipheralblood	blood
24	chr17:34198800-34199400	Enhancers	Primary T helper naive cells from peripheral blood	blood
25	chr17:34198800-34201800	Weak transcription	HUVEC	blood vessel
26	chr17:34198800-34202000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
27	chr17:34198800-34202200	Weak transcription	Fetal Muscle Leg	muscle
28	chr17:34198800-34202400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr17:34198800-34202400	Weak transcription	Monocytes-CD14+_RO01746	blood
30	chr17:34198800-34202600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr17:34198800-34206800	Weak transcription	Primary B cells from peripheral blood	blood
32	chr17:34198800-34206800	Weak transcription	Placenta	Placenta
33	chr17:34199000-34199400	Weak transcription	Fetal Thymus	thymus

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