Variant report

Variant	rs10899059
Chromosome Location	chr11:74746553-74746554
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:74640923..74643300-chr11:74745536..74747928,2	K562	blood:
2	chr11:74745840..74747710-chr11:74751159..74753007,2	K562	blood:

Extended variants
information (count: 58 )
Associated
traits (count: 19 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10751241	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs10793107	0.91[CEU][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs10793108	0.91[CEU][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes]
rs10793112	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10899052	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs10899053	0.91[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10899054	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10899058	0.92[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10899060	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10899061	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10899064	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11236281	0.86[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11236282	0.91[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11236289	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11236290	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11236294	0.92[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11236296	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11236303	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11236304	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11236306	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11236307	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11236309	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11236310	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11236311	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11600328	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11603294	0.90[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12221841	0.83[CEU][hapmap];0.90[JPT][hapmap]
rs12223822	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12226763	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12577127	0.92[CEU][hapmap];0.82[CHB][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12577614	0.82[AMR][1000 genomes]
rs1371410	0.92[CEU][hapmap];0.82[CHB][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2119028	0.87[CEU][hapmap];0.90[JPT][hapmap]
rs2165162	0.91[CEU][hapmap];0.90[JPT][hapmap]
rs2165163	0.91[CEU][hapmap];0.90[JPT][hapmap]
rs2298746	0.83[CEU][hapmap];0.90[JPT][hapmap]
rs2304683	0.83[CEU][hapmap];0.90[JPT][hapmap]
rs3814726	0.83[CEU][hapmap];0.90[JPT][hapmap];0.80[MEX][hapmap];0.82[TSI][hapmap]
rs4245440	0.92[CEU][hapmap];0.82[CHB][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4387374	0.92[CEU][hapmap];0.82[CHB][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4456280	0.83[CEU][hapmap];0.89[GIH][hapmap];0.83[TSI][hapmap]
rs4554917	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4944960	0.83[CEU][hapmap];0.90[JPT][hapmap]
rs4944961	0.87[CEU][hapmap];0.90[JPT][hapmap];0.84[MEX][hapmap];0.91[TSI][hapmap]
rs4944965	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4944968	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4944970	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56194145	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56885894	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7105085	0.83[CEU][hapmap];0.90[JPT][hapmap]
rs7106757	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7109716	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7128739	0.83[CEU][hapmap];0.90[JPT][hapmap]
rs725460	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7396866	0.92[CEU][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.88[ASN][1000 genomes]
rs7483351	0.91[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs919877	0.83[CEU][hapmap];0.90[JPT][hapmap]
rs9787775	0.87[CEU][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes]

mRNA abundance (count:19)

SNP	Gene	Cis/trans	Tissue	Source
rs10899059	XRRA1	cis	Stomach	GTEx
rs10899059	XRRA1	cis	Muscle Skeletal	GTEx
rs10899059	RP11-147I3.1	cis	Thyroid	GTEx
rs10899059	XRRA1	cis	Nerve Tibial	GTEx
rs10899059	XRRA1	cis	Adipose Subcutaneous	GTEx
rs10899059	XRRA1	cis	lung	GTEx
rs10899059	XRRA1	cis	Artery Tibial	GTEx
rs10899059	RP11-147I3.1	cis	lung	GTEx
rs10899059	XRRA1	cis	Esophagus Mucosa	GTEx
rs10899059	RP11-147I3.1	cis	Muscle Skeletal	GTEx
rs10899059	XRRA1	cis	Esophagus Muscularis	GTEx
rs10899059	XRRA1	cis	Heart Left Ventricle	GTEx
rs10899059	XRRA1	cis	normal skin	skin_eQTL
rs10899059	XRRA1	cis	lesional skin	skin_eQTL
rs10899059	XRRA1	cis	Skin Sun Exposed Lower leg	GTEx
rs10899059	XRRA1	cis	Whole Blood	GTEx
rs10899059	XRRA1	cis	Artery Aorta	GTEx
rs10899059	XRRA1	cis	Thyroid	GTEx
rs10899059	RNF169	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:74741800-74748000	Enhancers	Fetal Intestine Large	intestine
2	chr11:74742200-74748600	Enhancers	Fetal Intestine Small	intestine
3	chr11:74743000-74746600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr11:74743000-74751800	Weak transcription	Right Atrium	heart
5	chr11:74743200-74746800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr11:74743200-74746800	Weak transcription	Skeletal Muscle Male	skeletal muscle
7	chr11:74743200-74747000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr11:74743200-74747000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr11:74743200-74747000	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr11:74743200-74747000	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr11:74743200-74747000	Weak transcription	HMEC	breast
12	chr11:74743200-74747200	Weak transcription	Brain Substantia Nigra	brain
13	chr11:74743200-74748800	Weak transcription	Spleen	Spleen
14	chr11:74743600-74747000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr11:74743800-74746800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr11:74744000-74746800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr11:74745600-74747000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr11:74745600-74747200	Weak transcription	K562	blood
19	chr11:74746000-74747000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr11:74746400-74747600	Enhancers	GM12878-XiMat	blood
21	chr11:74746400-74747800	Enhancers	Primary B cells from peripheral blood	blood
22	chr11:74746400-74748200	Enhancers	Placenta	Placenta

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