Variant report

Variant	rs6912368
Chromosome Location	chr6:109830298-109830299
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:109830176-109830311	GM12878	blood:	n/a	n/a
2	ZNF143	chr6:109830174-109830463	H1-hESC	embryonic stem cell:	n/a	n/a
3	MAFK	chr6:109830192-109830422	H1-hESC	embryonic stem cell:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:109822082..109824887-chr6:109829770..109832005,2	K562	blood:

Variant related genes	Relation type
AK9	TF binding region

Extended variants
information (count: 100 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs10872041	0.81[EUR][1000 genomes]
rs10872052	0.81[CEU][hapmap]
rs1096136	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[EUR][1000 genomes]
rs1096138	0.89[EUR][1000 genomes]
rs11754263	0.82[EUR][1000 genomes]
rs11966009	0.80[EUR][1000 genomes]
rs12200787	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12524352	0.82[CEU][hapmap]
rs1321327	0.80[CEU][hapmap]
rs1358759	0.84[EUR][1000 genomes]
rs1570013	0.81[CEU][hapmap]
rs1590187	0.84[EUR][1000 genomes]
rs1925921	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1985123	0.84[EUR][1000 genomes]
rs1998812	0.83[EUR][1000 genomes]
rs2016207	0.81[CEU][hapmap]
rs2064820	0.81[EUR][1000 genomes]
rs2064822	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2232448	0.81[YRI][hapmap]
rs2357123	0.81[EUR][1000 genomes]
rs2357127	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4296926	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4523125	0.81[CEU][hapmap]
rs4946982	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4946986	0.81[EUR][1000 genomes]
rs4946987	0.81[EUR][1000 genomes]
rs4946995	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4946997	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4946998	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4947004	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs4947006	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs56125306	0.85[EUR][1000 genomes]
rs56264193	0.84[EUR][1000 genomes]
rs62437563	0.80[EUR][1000 genomes]
rs6568578	1.00[CHB][hapmap]
rs6568579	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6568580	0.84[EUR][1000 genomes]
rs6568582	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6568583	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6568591	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6568595	0.81[CEU][hapmap]
rs6568601	0.80[EUR][1000 genomes]
rs6900133	0.82[EUR][1000 genomes]
rs6911851	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6916239	0.84[CEU][hapmap];0.83[EUR][1000 genomes]
rs6917300	0.82[EUR][1000 genomes]
rs6921303	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6924269	0.81[CEU][hapmap]
rs6924436	0.82[EUR][1000 genomes]
rs6925886	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6931630	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[EUR][1000 genomes]
rs6932774	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6938741	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7453835	0.80[CEU][hapmap]
rs7761008	0.81[CEU][hapmap]
rs7769789	1.00[CHB][hapmap]
rs7771729	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7772109	0.81[EUR][1000 genomes]
rs7773915	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7775420	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs829817	0.84[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs911022	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs911023	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9320290	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9320300	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9320303	1.00[CEU][hapmap]
rs9320304	0.81[CEU][hapmap]
rs9372220	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9372221	0.80[CEU][hapmap]
rs9372222	0.81[CEU][hapmap]
rs9374092	0.84[EUR][1000 genomes]
rs9374095	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs9374096	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9374097	0.81[EUR][1000 genomes]
rs9374099	0.81[EUR][1000 genomes]
rs9374108	0.81[CEU][hapmap]
rs9374114	0.80[CEU][hapmap]
rs9384713	0.81[EUR][1000 genomes]
rs9386812	0.81[EUR][1000 genomes]
rs9386813	0.81[EUR][1000 genomes]
rs9386814	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9398204	0.81[EUR][1000 genomes]
rs9400289	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9400291	0.81[EUR][1000 genomes]
rs9400294	0.81[EUR][1000 genomes]
rs9400295	0.81[EUR][1000 genomes]
rs9400300	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9400312	0.81[CEU][hapmap]
rs942923	0.82[EUR][1000 genomes]
rs942924	0.83[EUR][1000 genomes]
rs9480973	0.81[CEU][hapmap];0.81[EUR][1000 genomes]
rs9480974	0.81[EUR][1000 genomes]
rs9480976	0.81[EUR][1000 genomes]
rs9487141	0.81[EUR][1000 genomes]
rs9487148	0.81[EUR][1000 genomes]
rs9487171	0.81[CEU][hapmap]
rs9487175	0.81[CEU][hapmap]
rs9487180	0.81[CEU][hapmap]
rs971432	0.81[CEU][hapmap]
rs9968792	0.89[AFR][1000 genomes];0.87[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6912368	SMPD2	cis	Whole Blood	GTEx
rs6912368	C6orf199	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:12 , 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	chr6:109825400-109830800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:109829200-109834600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr6:109829800-109830400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
8	chr6:109829800-109833400	ZNF genes & repeats	iPS-15b Cell Line	embryonic stem cell
9	chr6:109829800-109834600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr6:109830000-109831800	Enhancers	Esophagus	oesophagus
11	chr6:109830000-109832000	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
12	chr6:109830200-109831400	Weak transcription	Placenta	Placenta

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