Variant report

Variant	rs58099531
Chromosome Location	chr8:10986228-10986229
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AF131215.3.1-2	chr8:10986134-10987275	NONHSAT125039

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11991749	0.95[AFR][1000 genomes]
rs11995739	0.85[AFR][1000 genomes]
rs11997297	0.83[AFR][1000 genomes]
rs11997750	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11997794	1.00[AMR][1000 genomes]
rs12543056	0.83[AFR][1000 genomes]
rs12545002	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs34246803	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs34443137	0.95[AFR][1000 genomes]
rs55884158	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56801900	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57452073	1.00[AMR][1000 genomes]
rs57750289	0.85[AFR][1000 genomes]
rs73662695	0.83[AFR][1000 genomes]
rs73662697	0.95[AFR][1000 genomes]
rs73662698	0.95[AFR][1000 genomes]
rs73662701	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73662702	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73665003	1.00[AMR][1000 genomes]
rs73665005	1.00[AMR][1000 genomes]
rs73665006	1.00[AMR][1000 genomes]
rs73665007	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73665009	1.00[AMR][1000 genomes]
rs73665010	1.00[AMR][1000 genomes]
rs73665011	1.00[AMR][1000 genomes]
rs73665012	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73665015	0.85[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035072	chr8:10819444-11480692	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv539473	chr8:10819444-11480692	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	esv1815171	chr8:10940039-11128712	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv1025426	chr8:10942929-11037903	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv1026331	chr8:10955941-11046394	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv1027845	chr8:10959666-10995565	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv529399	chr8:10970091-11805960	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
8	nsv1019796	chr8:10979442-11010826	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:10966200-10999000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr8:10966400-11026200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr8:10982800-11003400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr8:10983000-11002000	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr8:10983000-11003200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr8:10983200-10989400	Weak transcription	Pancreas	Pancrea
7	chr8:10983200-10991000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr8:10983200-10997000	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr8:10983200-11001800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr8:10983400-10990800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr8:10983600-10990600	Weak transcription	Primary B cells from peripheral blood	blood
12	chr8:10983600-10991000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr8:10984400-11000000	Weak transcription	Rectal Smooth Muscle	rectum
14	chr8:10985400-10989600	Enhancers	GM12878-XiMat	blood
15	chr8:10985600-10986400	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr8:10985800-10986400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr8:10985800-10986400	Enhancers	Spleen	Spleen
18	chr8:10986200-10994600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links