Variant report

Variant	rs11659468
Chromosome Location	chr18:13144445-13144446
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:13140854..13145257-chr18:13540228..13543130,4	MCF-7	breast:
2	chr18:13142218..13144930-chr18:13215209..13217622,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168675	Chromatin interaction
ENSG00000267239	Chromatin interaction

Extended variants
information (count: 102 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs11080624	0.94[EUR][1000 genomes]
rs11080626	0.93[EUR][1000 genomes]
rs11080627	0.95[EUR][1000 genomes]
rs11660634	0.81[EUR][1000 genomes]
rs11660869	0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs11660908	0.90[EUR][1000 genomes]
rs11661163	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11661802	0.95[EUR][1000 genomes]
rs11662528	0.95[EUR][1000 genomes]
rs11663369	0.95[EUR][1000 genomes]
rs11663399	0.95[EUR][1000 genomes]
rs11663455	0.95[EUR][1000 genomes]
rs11663521	0.93[EUR][1000 genomes]
rs11664958	0.90[EUR][1000 genomes]
rs11665378	0.93[EUR][1000 genomes]
rs11665394	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11665451	0.89[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs12604624	0.92[EUR][1000 genomes]
rs12606033	0.92[EUR][1000 genomes]
rs12607152	0.95[EUR][1000 genomes]
rs12607203	0.95[EUR][1000 genomes]
rs12607323	0.92[EUR][1000 genomes]
rs12607329	0.92[EUR][1000 genomes]
rs12607661	0.95[EUR][1000 genomes]
rs12607682	0.93[EUR][1000 genomes]
rs16940154	0.82[AFR][1000 genomes]
rs2282542	0.93[EUR][1000 genomes]
rs3786162	0.95[EUR][1000 genomes]
rs3786163	0.95[EUR][1000 genomes]
rs3786164	0.95[EUR][1000 genomes]
rs3809907	0.93[EUR][1000 genomes]
rs3809908	0.93[EUR][1000 genomes]
rs56913743	0.95[EUR][1000 genomes]
rs57292913	0.92[EUR][1000 genomes]
rs57448401	0.94[EUR][1000 genomes]
rs57906042	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58158805	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58554306	0.92[EUR][1000 genomes]
rs58558999	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs58820551	0.92[EUR][1000 genomes]
rs58933784	0.96[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs59557962	0.93[EUR][1000 genomes]
rs59962936	0.92[EUR][1000 genomes]
rs60015020	0.93[EUR][1000 genomes]
rs60281669	0.93[EUR][1000 genomes]
rs60669993	0.93[EUR][1000 genomes]
rs60685477	0.93[EUR][1000 genomes]
rs60827697	0.92[EUR][1000 genomes]
rs61364693	0.91[EUR][1000 genomes]
rs6505781	0.80[AFR][1000 genomes]
rs66466160	0.80[EUR][1000 genomes]
rs66470739	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs66494849	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6650609	0.93[EUR][1000 genomes]
rs6650617	0.93[EUR][1000 genomes]
rs66559751	0.93[EUR][1000 genomes]
rs66685204	0.92[EUR][1000 genomes]
rs66688868	0.95[EUR][1000 genomes]
rs66767699	0.90[ASN][1000 genomes]
rs66935882	0.89[EUR][1000 genomes]
rs67084247	0.92[EUR][1000 genomes]
rs67334724	0.92[EUR][1000 genomes]
rs67357574	0.95[EUR][1000 genomes]
rs67432911	0.95[EUR][1000 genomes]
rs67675517	0.95[EUR][1000 genomes]
rs67765196	0.93[EUR][1000 genomes]
rs67863818	0.94[EUR][1000 genomes]
rs67868710	0.93[EUR][1000 genomes]
rs67955156	0.90[EUR][1000 genomes]
rs67996007	0.81[EUR][1000 genomes]
rs68169869	0.92[EUR][1000 genomes]
rs7228940	0.93[EUR][1000 genomes]
rs7236172	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7236987	0.93[EUR][1000 genomes]
rs7243276	0.93[EUR][1000 genomes]
rs7243536	0.93[EUR][1000 genomes]
rs7243597	0.93[EUR][1000 genomes]
rs72636760	0.92[EUR][1000 genomes]
rs72636761	0.92[EUR][1000 genomes]
rs8084728	0.95[EUR][1000 genomes]
rs8088543	0.93[EUR][1000 genomes]
rs8090759	0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8091992	0.93[EUR][1000 genomes]
rs8092992	0.92[EUR][1000 genomes]
rs8093363	0.93[EUR][1000 genomes]
rs8093650	0.89[EUR][1000 genomes]
rs8094351	0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062014	chr18:12687210-13183383	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
2	nsv543655	chr18:12687210-13183383	Flanking Bivalent TSS/Enh Strong transcription Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases
3	nsv1057083	chr18:12916779-13207538	Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv576524	chr18:12918318-13183609	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
5	nsv1056593	chr18:12926314-13183383	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
6	nsv1064364	chr18:12926314-13207686	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
7	nsv833591	chr18:13093777-13253748	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
8	nsv909408	chr18:13122618-13308950	ZNF genes & repeats Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	esv3437323	chr18:13141552-13145850	Weak transcription ZNF genes & repeats Enhancers	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	esv3362821	chr18:13142477-13145200	Enhancers ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	esv2534756	chr18:13142662-13144576	ZNF genes & repeats Weak transcription Enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	esv1834772	chr18:13143415-13157966	Weak transcription ZNF genes & repeats Active TSS Enhancers	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
13	esv1837050	chr18:13143415-13157966	Weak transcription Enhancers ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
14	esv1842163	chr18:13143415-13157966	ZNF genes & repeats Weak transcription Enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
15	esv1803268	chr18:13143415-13175903	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:13136400-13145800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr18:13143200-13145200	ZNF genes & repeats	Adipose Nuclei	Adipose
3	chr18:13144000-13144600	ZNF genes & repeats	Fetal Muscle Leg	muscle
4	chr18:13144200-13144600	ZNF genes & repeats	Pancreas	Pancrea
5	chr18:13144200-13144600	ZNF genes & repeats	Thymus	Thymus
6	chr18:13144200-13144800	ZNF genes & repeats	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links