Variant report

Variant	rs13118033
Chromosome Location	chr4:566258-566259
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:565489..567950-chr4:568759..571284,3	MCF-7	breast:
2	chr4:564165..566404-chr4:569838..571549,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PIGG-1	chr4:562509-568807	l_2577_chr4:560751-568807_brain

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10015198	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13101691	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13103955	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13104878	0.80[EUR][1000 genomes]
rs13107526	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13110755	0.80[EUR][1000 genomes]
rs13111179	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13114299	0.80[EUR][1000 genomes]
rs13116523	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13117283	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13127213	0.88[EUR][1000 genomes]
rs13133935	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13136626	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13139052	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13139089	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13143415	0.84[EUR][1000 genomes]
rs13147797	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13150119	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28654405	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28687729	0.92[EUR][1000 genomes]
rs28754934	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34053163	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34075612	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34094325	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34096984	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34165278	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34293668	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34363025	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34366493	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34391278	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34402770	0.92[EUR][1000 genomes]
rs34421911	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34477049	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34568772	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34585712	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34587191	0.87[AMR][1000 genomes]
rs34698095	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34953355	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34992186	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35006826	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35137658	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35158410	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35207129	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35219160	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35270524	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35455427	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35535457	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35564967	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35621318	0.80[EUR][1000 genomes]
rs35621580	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35649145	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35694609	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35732782	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35843044	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35853545	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35869797	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35894204	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35896648	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35925646	0.80[EUR][1000 genomes]
rs35935310	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35972513	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs36060793	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs36117387	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61760239	0.80[EUR][1000 genomes]
rs71602477	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71602479	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71602480	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71602481	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71602482	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71602484	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71602486	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71602489	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71602490	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs71602492	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71602500	0.80[EUR][1000 genomes]
rs7672426	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7685281	0.87[AMR][1000 genomes];0.92[EUR][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	nsv1011715	chr4:43860-823487	Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	esv2830422	chr4:72247-681939	Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
3	nsv532703	chr4:72447-614414	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv931097	chr4:72447-683874	Strong transcription Active TSS Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
5	nsv532702	chr4:72447-755236	Active TSS ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
6	nsv532704	chr4:85040-628550	ZNF genes & repeats Enhancers Bivalent Enhancer Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
7	nsv1005224	chr4:507005-900281	Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Strong transcription Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
8	nsv536976	chr4:507005-900281	Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
9	nsv878245	chr4:509178-694613	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
10	nsv822425	chr4:540105-1413799	Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	108 gene(s)	inside rSNPs	diseases
11	esv1796312	chr4:560701-569738	Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
12	esv3356673	chr4:562152-566350	Bivalent Enhancer Enhancers ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
13	esv3322011	chr4:563952-568150	ZNF genes & repeats Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:565600-567200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr4:565800-567000	Enhancers	Brain Angular Gyrus	brain
3	chr4:565800-567800	Bivalent Enhancer	Fetal Brain Male	brain
4	chr4:566200-568600	Weak transcription	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links