Variant report

Variant	rs650542
Chromosome Location	chr11:71553933-71553934
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 194 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:177)

rs_ID	r²[population]
rs10128658	1.00[CEU][hapmap]
rs10501408	0.87[CEU][hapmap]
rs1055452	0.87[CEU][hapmap]
rs1057992	0.87[CEU][hapmap]
rs10736781	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs10736783	0.82[CEU][hapmap]
rs10751189	1.00[CEU][hapmap]
rs10751191	0.87[CEU][hapmap]
rs10793011	0.87[CEU][hapmap]
rs12291678	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1541304	0.87[CEU][hapmap]
rs1541306	1.00[CEU][hapmap]
rs1548348	0.87[CEU][hapmap]
rs1573501	0.87[CEU][hapmap]
rs1573502	1.00[CEU][hapmap]
rs1612492	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1629046	0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1629722	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1783959	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1783960	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1783961	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1783962	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1791449	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1791450	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1791451	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1791452	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1892920	0.87[CEU][hapmap]
rs1892921	1.00[CEU][hapmap]
rs1939242	1.00[CEU][hapmap]
rs1939243	1.00[CEU][hapmap]
rs1939247	1.00[CEU][hapmap]
rs1939248	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2155142	0.87[CEU][hapmap]
rs2155145	0.84[JPT][hapmap]
rs2186637	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2187496	1.00[CEU][hapmap]
rs2276384	0.87[CEU][hapmap]
rs2298456	1.00[CEU][hapmap]
rs2298457	1.00[CEU][hapmap]
rs2460252	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2460253	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2460254	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2503	0.87[CEU][hapmap]
rs2508578	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2511097	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2511098	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2511099	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2845856	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2945921	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2945922	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3016288	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3016289	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3016291	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34390540	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3814721	1.00[CEU][hapmap]
rs3886589	0.80[EUR][1000 genomes]
rs4121395	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs4479013	0.80[EUR][1000 genomes]
rs474231	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs475759	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs475959	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs479487	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs481300	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs481355	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs482413	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs488799	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4944232	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs4944242	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs4944243	0.87[CEU][hapmap]
rs4945340	0.82[ASN][1000 genomes]
rs4945353	0.81[EUR][1000 genomes]
rs4945378	0.87[CEU][hapmap]
rs4945392	0.87[CEU][hapmap]
rs4945426	1.00[CEU][hapmap]
rs497761	0.87[CEU][hapmap];0.92[JPT][hapmap]
rs497867	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs499386	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs506395	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs507216	0.85[ASN][1000 genomes]
rs508230	0.84[ASN][1000 genomes]
rs513292	0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs514431	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs515358	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs518830	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs519098	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs520025	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs528942	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs529522	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs529567	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs531326	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs532433	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs542097	0.87[CEU][hapmap]
rs548127	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs550230	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs556089	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs558859	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55972015	0.85[EUR][1000 genomes]
rs560626	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs562414	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs562469	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs562621	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs564170	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs566965	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs573137	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs573227	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs579254	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59339387	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs596130	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs596629	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs599611	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs601865	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs603680	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs604671	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs607319	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs609181	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs609492	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs613140	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs613535	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs613971	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs618186	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs629714	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs633448	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs634829	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs635442	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs635701	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs636184	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs654780	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs656990	0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs657819	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs658661	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs658699	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6592447	0.87[CEU][hapmap]
rs6592448	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs6592449	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs6592450	1.00[CEU][hapmap]
rs6592451	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs6592453	1.00[CEU][hapmap]
rs6592455	1.00[CEU][hapmap]
rs6592456	0.87[CEU][hapmap]
rs6592457	0.87[CEU][hapmap]
rs661242	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs662649	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs669835	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs671072	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs671394	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs672424	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs674688	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs674735	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs675156	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs680150	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs686205	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs692940	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs693648	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7102192	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs7103210	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs7106730	0.85[CEU][hapmap]
rs7106748	0.85[EUR][1000 genomes]
rs7113436	0.87[CEU][hapmap]
rs7115513	0.87[CEU][hapmap]
rs7121080	0.87[CEU][hapmap]
rs7121260	1.00[CEU][hapmap]
rs7123992	1.00[CEU][hapmap]
rs7126394	0.87[CEU][hapmap]
rs7127865	1.00[CEU][hapmap]
rs7128317	1.00[CEU][hapmap]
rs7128974	1.00[CEU][hapmap]
rs7924516	0.80[EUR][1000 genomes]
rs7924834	0.87[CEU][hapmap]
rs7925604	0.87[CEU][hapmap]
rs7926533	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7930544	1.00[CEU][hapmap]
rs7931941	1.00[CEU][hapmap]
rs7944073	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7948821	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs947932	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs949323	0.86[CEU][hapmap]
rs949326	0.87[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530623	chr11:71088949-72020418	Enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	134 gene(s)	inside rSNPs	diseases
2	esv3527986	chr11:71298409-71620955	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
3	esv3527987	chr11:71298409-71620955	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
4	esv2761682	chr11:71299175-71619923	Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
5	nsv897904	chr11:71316093-71615727	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
6	nsv972041	chr11:71330518-71615123	Weak transcription Active TSS Enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
7	esv3369013	chr11:71338874-71612242	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
8	esv2758276	chr11:71363639-71657576	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
9	esv2759836	chr11:71363639-71657576	Active TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
10	nsv428262	chr11:71363639-71804055	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases
11	nsv897905	chr11:71371354-71615727	Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
12	esv1819073	chr11:71371742-71618164	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
13	esv1804003	chr11:71512115-71563035	Enhancers Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island lncRNA	7 gene(s)	inside rSNPs	diseases
14	esv11824	chr11:71515433-71603968	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island lncRNA	11 gene(s)	inside rSNPs	diseases
15	nsv8837	chr11:71517340-71559915	Active TSS Weak transcription Flanking Active TSS Enhancers	TF binding region CpG island lncRNA	6 gene(s)	inside rSNPs	diseases
16	esv1803631	chr11:71521288-71560091	Active TSS Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island lncRNA	4 gene(s)	inside rSNPs	diseases
17	esv18828	chr11:71551614-71592576	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats	TF binding region CpG island lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs650542	NUMA1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:71551400-71554800	Weak transcription	Spleen	Spleen
2	chr11:71552800-71554000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr11:71553000-71554000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr11:71553200-71554000	Enhancers	Esophagus	oesophagus
5	chr11:71553200-71554000	Enhancers	HepG2	liver
6	chr11:71553200-71554200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr11:71553200-71554200	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr11:71553200-71554400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr11:71553200-71554400	Enhancers	NHEK	skin
10	chr11:71553400-71554000	Enhancers	H9 Cell Line	embryonic stem cell
11	chr11:71553400-71554000	Enhancers	Primary hematopoietic stem cells	blood
12	chr11:71553400-71554200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr11:71553400-71555400	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr11:71553600-71554000	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr11:71553600-71554200	Enhancers	H1 Cell Line	embryonic stem cell
16	chr11:71553600-71555200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
17	chr11:71553800-71554000	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr11:71553800-71554200	Enhancers	iPS-18 Cell Line	embryonic stem cell

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