Variant report

Variant	rs6568579
Chromosome Location	chr6:109834223-109834224
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 86 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10872041	0.82[EUR][1000 genomes]
rs1096136	0.85[EUR][1000 genomes]
rs1096138	0.90[EUR][1000 genomes]
rs11754263	0.83[EUR][1000 genomes]
rs11966009	0.81[EUR][1000 genomes]
rs12200787	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1358759	0.85[EUR][1000 genomes]
rs1570011	0.81[EUR][1000 genomes]
rs1590187	0.85[EUR][1000 genomes]
rs17540056	0.81[EUR][1000 genomes]
rs1925921	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1985123	0.85[EUR][1000 genomes]
rs1998812	0.84[EUR][1000 genomes]
rs2064820	0.82[EUR][1000 genomes]
rs2064822	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2357123	0.82[EUR][1000 genomes]
rs2357127	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4296926	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4946982	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4946986	0.82[EUR][1000 genomes]
rs4946987	0.82[EUR][1000 genomes]
rs4946995	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4946997	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4946998	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4947004	0.91[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs4947006	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs56125306	0.86[EUR][1000 genomes]
rs56264193	0.85[EUR][1000 genomes]
rs62437563	0.81[EUR][1000 genomes]
rs6568580	0.85[EUR][1000 genomes]
rs6568582	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6568583	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6568591	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs6568601	0.81[EUR][1000 genomes]
rs6900133	0.83[EUR][1000 genomes]
rs6900187	0.81[EUR][1000 genomes]
rs6911851	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6912368	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6916239	0.84[EUR][1000 genomes]
rs6917300	0.83[EUR][1000 genomes]
rs6921303	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6924436	0.83[EUR][1000 genomes]
rs6925886	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6929823	0.81[EUR][1000 genomes]
rs6931630	0.92[EUR][1000 genomes]
rs6932774	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6938741	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7771729	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7772109	0.82[EUR][1000 genomes]
rs7773915	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7775420	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs829817	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs911022	0.91[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs911023	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs9320290	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9320294	0.80[EUR][1000 genomes]
rs9320295	0.81[EUR][1000 genomes]
rs9320296	0.81[EUR][1000 genomes]
rs9320299	0.81[EUR][1000 genomes]
rs9320300	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9372220	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9374092	0.85[EUR][1000 genomes]
rs9374095	0.82[EUR][1000 genomes]
rs9374096	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9374097	0.82[EUR][1000 genomes]
rs9374098	0.80[EUR][1000 genomes]
rs9374099	0.82[EUR][1000 genomes]
rs9384713	0.82[EUR][1000 genomes]
rs9384715	0.81[EUR][1000 genomes]
rs9386812	0.82[EUR][1000 genomes]
rs9386813	0.82[EUR][1000 genomes]
rs9386814	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9398204	0.83[EUR][1000 genomes]
rs9400289	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9400291	0.82[EUR][1000 genomes]
rs9400294	0.82[EUR][1000 genomes]
rs9400295	0.82[EUR][1000 genomes]
rs9400300	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs942923	0.83[EUR][1000 genomes]
rs942924	0.84[EUR][1000 genomes]
rs9480973	0.82[EUR][1000 genomes]
rs9480974	0.82[EUR][1000 genomes]
rs9480976	0.82[EUR][1000 genomes]
rs9487141	0.82[EUR][1000 genomes]
rs9487148	0.82[EUR][1000 genomes]
rs9968792	0.89[AFR][1000 genomes];0.88[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6568579	C6orf199	Cis_1M	lymphoblastoid	RTeQTL
rs6568579	SMPD2	cis	Whole Blood	GTEx

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109815800-109837200	Weak transcription	Primary B cells from cord blood	blood
2	chr6:109823400-109834600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr6:109825000-109837000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr6:109825200-109834600	Weak transcription	HSMMtube	muscle
5	chr6:109829200-109834600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr6:109829800-109834600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr6:109831800-109834800	Weak transcription	Placenta	Placenta
8	chr6:109832000-109836400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr6:109833000-109835200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr6:109833200-109835400	Enhancers	HUVEC	blood vessel
11	chr6:109834000-109834400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr6:109834000-109834400	Weak transcription	Osteobl	bone
13	chr6:109834000-109834800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr6:109834000-109836400	Enhancers	iPS-15b Cell Line	embryonic stem cell
15	chr6:109834200-109835200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr6:109834200-109836000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr6:109834200-109836400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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