Variant report

Variant	rs6504114
Chromosome Location	chr17:46305960-46305961
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:46304702..46306804-chr17:46316986..46319945,3	K562	blood:
2	chr17:46304444..46306015-chr17:46686248..46688423,2	K562	blood:
3	chr17:46304803..46307483-chr17:46322659..46325078,2	K562	blood:
4	chr17:46305304..46308204-chr17:46318445..46319954,2	K562	blood:
5	chr17:46303456..46306699-chr17:46306706..46309009,3	K562	blood:

Variant related genes	Relation type
ENSG00000260027	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11079810	0.89[CEU][hapmap];0.89[YRI][hapmap];0.86[EUR][1000 genomes]
rs11079813	1.00[CEU][hapmap];0.88[YRI][hapmap];0.87[EUR][1000 genomes]
rs11650476	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11654292	1.00[CEU][hapmap];0.88[YRI][hapmap];0.81[EUR][1000 genomes]
rs11658242	1.00[CEU][hapmap];0.87[YRI][hapmap]
rs1544597	0.90[EUR][1000 genomes]
rs16969990	0.83[YRI][hapmap]
rs1975703	1.00[CEU][hapmap];0.89[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28481675	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56258199	0.81[EUR][1000 genomes]
rs60707285	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs60843764	0.81[EUR][1000 genomes]
rs6504067	1.00[CEU][hapmap];0.89[YRI][hapmap];0.90[EUR][1000 genomes]
rs6504115	1.00[CEU][hapmap];0.89[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7207553	1.00[CEU][hapmap];0.83[YRI][hapmap];0.87[EUR][1000 genomes]
rs7210671	1.00[CEU][hapmap];0.89[YRI][hapmap];0.87[EUR][1000 genomes]
rs7220398	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7221897	0.82[CEU][hapmap];0.85[YRI][hapmap];0.87[EUR][1000 genomes]
rs7222646	1.00[CEU][hapmap];0.88[YRI][hapmap];0.81[EUR][1000 genomes]
rs7224155	1.00[CEU][hapmap];0.88[YRI][hapmap];0.87[EUR][1000 genomes]
rs7225288	1.00[CEU][hapmap];0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs73322881	0.86[EUR][1000 genomes]
rs73322886	0.85[EUR][1000 genomes]
rs73324779	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8065797	1.00[CEU][hapmap];0.89[YRI][hapmap]
rs8067470	1.00[CEU][hapmap];0.88[YRI][hapmap]
rs8071697	1.00[CEU][hapmap];0.85[YRI][hapmap];0.90[EUR][1000 genomes]
rs9890850	0.81[EUR][1000 genomes]
rs9893110	1.00[CEU][hapmap];0.89[YRI][hapmap];0.87[EUR][1000 genomes]
rs9894076	0.86[EUR][1000 genomes]
rs9905800	1.00[CEU][hapmap];0.88[YRI][hapmap]
rs9907268	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6504114	RP5-890E16.2	cis	Nerve Tibial	GTEx
rs6504114	PNPO	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:46266800-46318200	Weak transcription	Primary B cells from peripheral blood	blood
2	chr17:46273200-46314000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr17:46283600-46314000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr17:46288400-46307000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr17:46294000-46318000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr17:46295800-46314200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr17:46297600-46314400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr17:46298000-46306000	Weak transcription	K562	blood
9	chr17:46301200-46314000	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr17:46302600-46315800	Weak transcription	GM12878-XiMat	blood
11	chr17:46302800-46307200	Strong transcription	Primary T cells fromperipheralblood	blood
12	chr17:46302800-46307400	Weak transcription	HUVEC	blood vessel
13	chr17:46303200-46306000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr17:46303400-46314200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr17:46303600-46306000	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr17:46303600-46306200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr17:46303600-46307600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr17:46304400-46308600	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr17:46305200-46317600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr17:46305600-46310800	Strong transcription	Primary T cells from cord blood	blood
21	chr17:46305800-46306400	Enhancers	Primary T helper naive cells from peripheral blood	blood
22	chr17:46305800-46309400	Weak transcription	A549	lung

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