Variant report

Variant	rs9957164
Chromosome Location	chr18:11505508-11505509
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLC35G4-1	chr18:11505503-11506635	XLOC_012626
2	lnc-SLC35G4-1	chr18:11505502-11506635	NONHSAT057314

Extended variants
information (count: 149 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:136)

rs_ID	r²[population]
rs1031540	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1031541	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1031542	0.85[AMR][1000 genomes]
rs1031543	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1031544	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10445418	0.92[EUR][1000 genomes]
rs10468622	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10468623	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10468624	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10468625	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10468678	0.87[EUR][1000 genomes]
rs1455242	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1940934	0.91[EUR][1000 genomes]
rs1985449	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2155683	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2155775	0.92[EUR][1000 genomes]
rs2155776	0.92[EUR][1000 genomes]
rs2298531	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2298532	0.85[AMR][1000 genomes]
rs28379046	0.91[EUR][1000 genomes]
rs28458831	0.90[EUR][1000 genomes]
rs28525549	0.92[EUR][1000 genomes]
rs28565004	0.91[EUR][1000 genomes]
rs28619985	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3819088	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4239298	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4347691	0.89[EUR][1000 genomes]
rs4496226	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4496227	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4555212	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4561535	0.92[EUR][1000 genomes]
rs4796926	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4796927	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4796928	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4796929	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4796930	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4797541	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4797542	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4797543	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4797545	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4797546	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4797547	0.84[AMR][1000 genomes]
rs4797548	0.81[AMR][1000 genomes]
rs4797549	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4797550	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4797551	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4797552	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4797553	0.92[EUR][1000 genomes]
rs5004595	0.88[EUR][1000 genomes]
rs5004596	0.91[EUR][1000 genomes]
rs5004597	0.91[EUR][1000 genomes]
rs5004598	0.91[EUR][1000 genomes]
rs55724046	0.92[EUR][1000 genomes]
rs55977730	0.92[EUR][1000 genomes]
rs56720897	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs56916392	0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs58000805	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs58414632	0.91[EUR][1000 genomes]
rs58674932	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59432389	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs59753404	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs59970782	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60298221	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60369151	0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60949636	0.92[EUR][1000 genomes]
rs66498154	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs66565638	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs66844185	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs67146326	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs67273891	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs67290984	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs67482905	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs67818523	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7226636	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7226808	0.85[AMR][1000 genomes]
rs7227865	0.92[EUR][1000 genomes]
rs7227957	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7228446	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7228991	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7229302	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7230248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7230843	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7232167	0.92[EUR][1000 genomes]
rs7232404	0.91[EUR][1000 genomes]
rs7233013	0.92[EUR][1000 genomes]
rs7240498	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7241482	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7242789	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7244205	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7244529	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7244660	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72877316	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs732870	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs732871	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs732872	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73408951	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73408953	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs734575	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs745990	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8084029	0.92[EUR][1000 genomes]
rs8088252	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8093677	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8093875	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8094323	0.90[EUR][1000 genomes]
rs8094650	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9303735	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9303736	0.85[AMR][1000 genomes]
rs9303737	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9303738	0.92[EUR][1000 genomes]
rs9303739	0.92[EUR][1000 genomes]
rs948286	0.90[EUR][1000 genomes]
rs9630759	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9944609	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9945383	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9946715	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9946975	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9946991	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9950369	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9950652	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9951253	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9953743	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9953784	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9954457	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9954648	0.85[AMR][1000 genomes]
rs9957329	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9957350	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9957500	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9957518	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9957674	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9961424	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9963650	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9964001	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9964344	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9964361	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9966638	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9967575	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv458029	chr18:10814334-11662151	Flanking Active TSS Enhancers ZNF genes & repeats Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
2	nsv576480	chr18:10814334-11662151	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
3	nsv1066659	chr18:11246502-11709409	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	24 gene(s)	inside rSNPs	diseases
4	nsv1057976	chr18:11251898-11664914	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	24 gene(s)	inside rSNPs	diseases
5	nsv543650	chr18:11251898-11664914	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	24 gene(s)	inside rSNPs	diseases
6	nsv1056541	chr18:11336695-11558542	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
7	nsv543651	chr18:11336695-11558542	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
8	nsv458031	chr18:11362587-11557161	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
9	nsv576482	chr18:11362587-11557161	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
10	nsv909381	chr18:11431945-11609487	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
11	nsv2204	chr18:11499825-11544209	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	nsv576483	chr18:11502864-11510556	Weak transcription Enhancers Flanking Active TSS	TF binding region lncRNA	5 gene(s)	inside rSNPs	diseases
13	nsv576484	chr18:11502864-11510900	Enhancers Weak transcription Flanking Active TSS	TF binding region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:11500200-11506600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr18:11501000-11505800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr18:11502000-11506400	Weak transcription	Hela-S3	cervix
4	chr18:11502600-11506600	Weak transcription	NH-A	brain
5	chr18:11502600-11513200	Weak transcription	NHDF-Ad	bronchial
6	chr18:11504800-11507000	Enhancers	Fetal Thymus	thymus
7	chr18:11504800-11507000	Enhancers	Thymus	Thymus
8	chr18:11504800-11507200	Enhancers	Dnd41	blood

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