Variant report

Variant	rs501308
Chromosome Location	chr11:71581325-71581326
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NUMA1-1	chr11:71581076-71581470	XLOC_009494

Extended variants
information (count: 125 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:111)

rs_ID	r²[population]
rs10128658	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs10450664	0.87[CEU][hapmap];0.84[CHB][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap]
rs10501408	1.00[CEU][hapmap];0.84[CHB][hapmap];0.95[GIH][hapmap];0.84[JPT][hapmap]
rs1055452	1.00[CEU][hapmap]
rs1057992	1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap]
rs10736780	0.84[EUR][1000 genomes]
rs10736781	0.91[GIH][hapmap]
rs10736783	1.00[CEU][hapmap];0.89[CHB][hapmap];0.83[JPT][hapmap]
rs10751189	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs10751191	1.00[CEU][hapmap];0.84[CHB][hapmap];0.84[JPT][hapmap]
rs10793011	1.00[CEU][hapmap];0.84[CHB][hapmap];0.84[JPT][hapmap]
rs10793016	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs11501737	0.95[EUR][1000 genomes]
rs12274803	0.84[EUR][1000 genomes]
rs12290931	0.89[EUR][1000 genomes]
rs1541304	1.00[CEU][hapmap];0.84[CHB][hapmap];0.84[JPT][hapmap]
rs1541306	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs1548348	1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap]
rs1573501	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs1573502	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs1791453	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1791456	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1892920	1.00[CEU][hapmap];0.84[CHB][hapmap];0.83[JPT][hapmap]
rs1892921	0.87[CEU][hapmap]
rs1894004	1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap]
rs1939242	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs1939243	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs1939247	0.87[CEU][hapmap]
rs2155142	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes]
rs2155145	0.87[CEU][hapmap];0.92[JPT][hapmap]
rs2187496	0.86[CEU][hapmap]
rs2276384	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap]
rs2298456	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs2298457	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs2503	1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap]
rs2511096	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2885661	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3018310	1.00[CEU][hapmap];0.81[CHB][hapmap];0.81[JPT][hapmap]
rs35844356	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3814721	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs3829215	0.84[CHB][hapmap];0.91[GIH][hapmap]
rs4121395	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs4269951	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4338555	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs4387373	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs4477459	0.87[CEU][hapmap];0.84[JPT][hapmap]
rs480341	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs488829	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs491319	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs492135	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4944232	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs4944242	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs4944243	1.00[CEU][hapmap];0.84[CHB][hapmap];0.84[JPT][hapmap]
rs4945378	1.00[CEU][hapmap];0.84[CHB][hapmap];0.84[JPT][hapmap]
rs4945392	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap]
rs4945426	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs4945434	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs497761	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs498770	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs518959	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs538569	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs542097	1.00[CEU][hapmap];0.84[CHB][hapmap];0.82[JPT][hapmap];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs551715	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs560777	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs561452	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs567026	1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap]
rs567851	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs575871	1.00[CEU][hapmap];0.87[GIH][hapmap];0.84[JPT][hapmap]
rs585228	0.86[CEU][hapmap]
rs592051	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs609500	0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs610421	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs612255	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs612687	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs620945	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs625273	0.92[ASN][1000 genomes]
rs642573	0.87[CEU][hapmap]
rs6592447	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes]
rs6592448	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs6592449	0.87[CEU][hapmap]
rs6592450	0.87[CEU][hapmap];0.87[GIH][hapmap]
rs6592451	1.00[CEU][hapmap];0.91[GIH][hapmap]
rs6592453	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs6592455	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs6592456	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs6592457	1.00[CEU][hapmap]
rs661290	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs674735	0.87[CEU][hapmap];0.92[JPT][hapmap]
rs679926	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs7102192	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs7103210	0.86[CEU][hapmap]
rs7106730	1.00[CEU][hapmap]
rs7113436	1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap]
rs7115513	1.00[CEU][hapmap];0.84[CHB][hapmap];0.84[JPT][hapmap]
rs7121080	1.00[CEU][hapmap];0.84[CHB][hapmap];0.84[JPT][hapmap]
rs7121260	0.87[CEU][hapmap];0.82[GIH][hapmap]
rs7123992	0.82[CEU][hapmap]
rs7126394	1.00[CEU][hapmap];0.84[CHB][hapmap];0.84[JPT][hapmap]
rs7127865	0.87[CEU][hapmap]
rs7128317	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs7128974	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs7924834	1.00[CEU][hapmap];1.00[GIH][hapmap];0.84[EUR][1000 genomes]
rs7925411	0.85[CEU][hapmap];0.82[CHB][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap]
rs7925604	1.00[CEU][hapmap];0.84[CHB][hapmap];0.84[JPT][hapmap]
rs7930544	0.86[CEU][hapmap]
rs7931941	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs7948821	0.87[CEU][hapmap];0.91[GIH][hapmap]
rs947932	0.87[CEU][hapmap]
rs949323	1.00[CEU][hapmap];0.95[GIH][hapmap];0.84[JPT][hapmap]
rs949326	1.00[CEU][hapmap];1.00[GIH][hapmap]
rs9735988	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 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	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
14	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
rs501308	RNF121	cis	multi-tissue	Pritchard

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:71571400-71594000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr11:71575000-71581600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr11:71575600-71591600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr11:71578600-71581400	Weak transcription	Primary B cells from cord blood	blood
5	chr11:71579800-71613800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr11:71580000-71614200	Weak transcription	Ovary	ovary
7	chr11:71580400-71582400	Enhancers	Primary B cells from peripheral blood	blood
8	chr11:71580400-71607000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr11:71580400-71616800	Weak transcription	Primary T helper cells fromperipheralblood	blood
10	chr11:71581000-71582000	Enhancers	GM12878-XiMat	blood
11	chr11:71581200-71607000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links