Variant report

Variant	rs17152884
Chromosome Location	chr8:10981586-10981587
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MTMR9-1	chr8:10980891-10982326	ENSG00000247665
2	lnc-AF131215.3.1-1	chr8:10980891-10982327	ENSG00000254936.3
3	lnc-AF131215.3.1-1	chr8:10980891-10982327	ENSG00000254936.3
4	lnc-AF131215.3.1-1	chr8:10980891-10982327	NONHSAT125036

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10503413	1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10503414	0.92[EUR][1000 genomes]
rs11778121	1.00[JPT][hapmap]
rs13256092	1.00[JPT][hapmap]
rs17152953	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes]
rs17724226	1.00[JPT][hapmap]
rs17780806	1.00[JPT][hapmap]
rs2409728	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs3736014	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs3736015	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57551254	0.92[EUR][1000 genomes]
rs57827662	0.92[EUR][1000 genomes]
rs58152481	0.92[EUR][1000 genomes]
rs58512247	0.90[ASN][1000 genomes]
rs59757809	0.92[EUR][1000 genomes]
rs60088021	0.92[EUR][1000 genomes]
rs60863755	0.92[EUR][1000 genomes]
rs61063469	0.92[EUR][1000 genomes]
rs6601561	1.00[JPT][hapmap]
rs6601563	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs6991930	1.00[JPT][hapmap]
rs7000695	1.00[CHD][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7008658	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.92[EUR][1000 genomes]
rs7010256	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes]
rs73530504	0.92[EUR][1000 genomes]
rs73530510	0.92[EUR][1000 genomes]
rs73530511	0.92[EUR][1000 genomes]
rs73530513	0.92[EUR][1000 genomes]
rs73530517	0.92[EUR][1000 genomes]
rs73530522	0.92[EUR][1000 genomes]
rs73530525	0.92[EUR][1000 genomes]
rs73530550	0.92[EUR][1000 genomes]
rs73530555	0.92[EUR][1000 genomes]
rs73530560	0.92[EUR][1000 genomes]
rs73545496	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73547404	0.88[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73547414	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73547429	1.00[EUR][1000 genomes]
rs73547452	0.92[EUR][1000 genomes]
rs73547456	0.92[EUR][1000 genomes]
rs7819338	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.92[EUR][1000 genomes]
rs7830569	0.82[ASN][1000 genomes]
rs7832722	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs7834295	1.00[JPT][hapmap]
rs7840926	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes]
rs7842261	1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7845493	1.00[CHD][hapmap];1.00[JPT][hapmap]

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:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:10965800-10981600	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr8:10966200-10999000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr8:10966400-11026200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr8:10980600-10982000	Enhancers	Primary hematopoietic stem cells	blood
5	chr8:10980800-10981600	Flanking Active TSS	GM12878-XiMat	blood
6	chr8:10981000-10981600	Enhancers	Primary T killer memory cells from peripheral blood	blood
7	chr8:10981200-10981600	Enhancers	Primary B cells from cord blood	blood
8	chr8:10981200-10981600	Enhancers	Primary B cells from peripheral blood	blood
9	chr8:10981200-10981600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
10	chr8:10981200-10981600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr8:10981200-10981600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
12	chr8:10981200-10981600	Enhancers	Spleen	Spleen
13	chr8:10981200-10982200	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr8:10981200-10982400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
15	chr8:10981200-10982800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr8:10981400-10981600	Flanking Active TSS	Primary T cells fromperipheralblood	blood
17	chr8:10981400-10981600	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
18	chr8:10981400-10981600	Flanking Active TSS	Duodenum Mucosa	Duodenum
19	chr8:10981400-10982000	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr8:10981400-10982200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
21	chr8:10981400-10982200	Active TSS	Rectal Mucosa Donor 29	rectum
22	chr8:10981400-10982400	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
23	chr8:10981400-10982400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
24	chr8:10981400-10982400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
25	chr8:10981400-10982400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
26	chr8:10981400-10982400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
27	chr8:10981400-10982400	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr8:10981400-10982400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr8:10981400-10982400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr8:10981400-10982800	Enhancers	H9 Cell Line	embryonic stem cell
31	chr8:10981400-10983000	Enhancers	HUES48 Cell Line	embryonic stem cell
32	chr8:10981400-10983000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
33	chr8:10981400-10983000	Enhancers	Lung	lung
34	chr8:10981400-10983200	Enhancers	H1 Cell Line	embryonic stem cell
35	chr8:10981400-10983200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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