Variant report

Variant	rs9889274
Chromosome Location	chr17:34237401-34237402
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:34236497..34238510-chr17:34243558..34246809,3	K562	blood:
2	chr17:34232786..34236982-chr17:34237084..34241613,5	K562	blood:
3	chr17:34135239..34137919-chr17:34235430..34238099,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RDM1-1	chr17:34233172-34238027	ENSG00000266999.1

Variant related genes	Relation type
ENSG00000266999	Chromatin interaction
ENSG00000172660	Chromatin interaction
ENSG00000267578	Chromatin interaction
ENSG00000266972	Chromatin interaction

Extended variants
information (count: 136 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:136)

rs_ID	r²[population]
rs11080360	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11080361	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11080362	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11650409	0.93[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.93[JPT][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11652192	0.89[ASN][1000 genomes]
rs11652536	0.93[CHB][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11653016	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11653051	0.93[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.93[JPT][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11653204	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11653282	1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs11654713	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11655533	0.93[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.93[JPT][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11656556	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11657908	0.93[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.93[JPT][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11658222	0.86[ASN][1000 genomes]
rs11868244	0.89[EUR][1000 genomes]
rs11868785	0.90[TSI][hapmap]
rs11868801	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11869976	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16971670	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2014839	0.89[ASN][1000 genomes]
rs2107540	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2251660	0.80[CHB][hapmap];0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs2280787	0.80[CHB][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs2280789	0.86[TSI][hapmap];0.84[EUR][1000 genomes]
rs2306630	0.95[TSI][hapmap]
rs2376287	0.80[CHB][hapmap];0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs2526327	0.80[CHB][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs2526328	0.92[JPT][hapmap];0.87[ASN][1000 genomes]
rs2702947	0.86[ASN][1000 genomes]
rs2702948	0.86[ASN][1000 genomes]
rs2735475	0.80[CHB][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs28550999	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28722787	0.90[ASN][1000 genomes]
rs28739295	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28912068	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34369685	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs3760326	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3760447	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3785764	0.81[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.81[JPT][hapmap];0.82[TSI][hapmap];0.88[ASN][1000 genomes]
rs3809769	0.93[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.95[TSI][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3817655	0.90[TSI][hapmap]
rs3817656	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4251702	0.95[TSI][hapmap]
rs4251719	0.90[TSI][hapmap]
rs4251727	0.86[ASN][1000 genomes]
rs4251729	0.86[ASN][1000 genomes]
rs4251751	0.86[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs4251752	0.93[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs4251769	0.90[TSI][hapmap]
rs4251788	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4795089	0.86[CHB][hapmap];0.88[CHD][hapmap];0.95[TSI][hapmap]
rs4795091	0.90[ASN][1000 genomes]
rs4795092	0.90[ASN][1000 genomes]
rs4795095	0.93[CHB][hapmap];0.86[JPT][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4795096	0.86[TSI][hapmap];0.84[EUR][1000 genomes]
rs4795097	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4795099	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4795100	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4795101	0.80[CHB][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs4796107	0.86[CHB][hapmap];0.95[TSI][hapmap]
rs4796112	0.93[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.90[TSI][hapmap];0.89[ASN][1000 genomes]
rs4796113	0.89[ASN][1000 genomes]
rs4796114	0.89[ASN][1000 genomes]
rs4796115	0.93[CHB][hapmap];0.86[JPT][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4796118	0.88[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4796119	0.82[ASW][hapmap];0.93[CHB][hapmap];0.88[CHD][hapmap];0.84[JPT][hapmap];0.95[TSI][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4796120	0.82[ASW][hapmap];0.93[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.95[TSI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4796123	0.93[CHB][hapmap];0.86[TSI][hapmap];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4796124	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4796125	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4796126	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4796127	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4796129	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4796130	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4796131	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4796133	0.88[ASN][1000 genomes]
rs4796134	0.90[ASN][1000 genomes]
rs4796136	0.80[CHB][hapmap];0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs4796137	0.90[ASN][1000 genomes]
rs4796138	0.80[CHB][hapmap];0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs55950249	0.83[EUR][1000 genomes]
rs56294660	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56344830	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59247105	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59338510	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7213636	0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs9303691	0.93[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.95[TSI][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9303692	0.95[TSI][hapmap]
rs9303693	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9754	0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs9789051	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9889874	0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs9889977	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9890583	0.85[ASN][1000 genomes]
rs9891064	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9893004	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9894083	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9894314	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9894799	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9896265	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9896658	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9897665	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9898132	0.93[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.95[TSI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9898152	0.93[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.95[TSI][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9899215	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9899866	0.93[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.93[JPT][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9899870	0.93[CHB][hapmap];0.93[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9899881	0.89[ASN][1000 genomes]
rs9900236	0.93[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];0.93[JPT][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9900473	0.88[ASN][1000 genomes]
rs9900563	0.88[EUR][1000 genomes]
rs9901195	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9901418	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9903590	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9904675	0.92[CHB][hapmap];0.89[GIH][hapmap];0.93[JPT][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9907121	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9907145	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9907295	0.93[CHB][hapmap];0.89[GIH][hapmap];0.93[JPT][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9907588	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9908011	0.93[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.93[JPT][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9908525	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9908907	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9909050	0.82[ASW][hapmap];0.93[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9911016	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9911598	0.86[ASN][1000 genomes]
rs9912049	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9912284	0.93[CHB][hapmap];0.93[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9912552	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9912571	0.93[CHB][hapmap];0.93[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9912793	1.00[CHB][hapmap];0.92[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9912894	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9913488	0.93[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.93[JPT][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9913559	0.80[CHB][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs9914401	0.93[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.95[TSI][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9914468	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9889274	TAF15	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:34229800-34240000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
2	chr17:34230000-34245400	Weak transcription	Primary T cells from cord blood	blood
3	chr17:34234200-34240000	Weak transcription	Fetal Intestine Large	intestine
4	chr17:34234600-34240000	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr17:34234600-34244400	Weak transcription	Thymus	Thymus
6	chr17:34234600-34251200	Weak transcription	Fetal Thymus	thymus
7	chr17:34236800-34239200	Enhancers	K562	blood
8	chr17:34237000-34237800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
9	chr17:34237000-34240200	Weak transcription	Fetal Intestine Small	intestine

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