Variant report

Variant	rs61970067
Chromosome Location	chr13:86161185-86161186
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:28)
CpG islands
(count:0)
Chromatin interactive
region (count:1)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:28 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TCF12	chr13:86160370-86161625	A549	lung:	n/a	n/a
2	NR2F2	chr13:86160502-86161236	MCF-7	breast:	n/a	n/a
3	FOS	chr13:86160477-86161406	MCF10A-Er-Src	breast:	n/a	n/a
4	SP1	chr13:86160478-86161472	A549	lung:	n/a	n/a
5	EP300	chr13:86160395-86161428	A549	lung:	n/a	n/a
6	FOS	chr13:86160483-86161486	MCF10A-Er-Src	breast:	n/a	n/a
7	EP300	chr13:86160474-86161471	A549	lung:	n/a	n/a
8	GATA3	chr13:86160478-86161308	MCF-7	breast:	n/a	n/a
9	STAT3	chr13:86160523-86161364	MCF10A-Er-Src	breast:	n/a	n/a
10	STAT3	chr13:86160655-86161193	MCF10A-Er-Src	breast:	n/a	n/a
11	FOS	chr13:86160504-86161385	MCF10A-Er-Src	breast:	n/a	n/a
12	GATA3	chr13:86160459-86161313	SK-N-SH	brain:	n/a	n/a
13	NFIC	chr13:86160419-86161219	SK-N-SH	brain:	n/a	n/a
14	GATA3	chr13:86160496-86161354	MCF-7	breast:	n/a	n/a
15	GATA3	chr13:86160435-86161607	A549	lung:	n/a	n/a
16	MYC	chr13:86160585-86161346	MCF10A-Er-Src	breast:	n/a	n/a
17	REST	chr13:86160580-86161324	A549	lung:	n/a	n/a
18	FOSL2	chr13:86160413-86161547	A549	lung:	n/a	n/a
19	FOXA2	chr13:86160481-86161565	A549	lung:	n/a	n/a
20	GATA3	chr13:86160502-86161363	A549	lung:	n/a	n/a
21	MYC	chr13:86160538-86161276	MCF10A-Er-Src	breast:	n/a	n/a
22	FOXA1	chr13:86161025-86161317	T-47D	breast:	n/a	n/a
23	GATA3	chr13:86160477-86161209	SK-N-SH	brain:	n/a	n/a
24	FOS	chr13:86160500-86161431	MCF10A-Er-Src	breast:	n/a	n/a
25	CEBPB	chr13:86160830-86161217	MCF-7	breast:	n/a	n/a
26	TCF12	chr13:86160482-86161198	SK-N-SH	brain:	n/a	n/a
27	GATA3	chr13:86160506-86161290	MCF-7	breast:	n/a	n/a
28	NR2F2	chr13:86160512-86161320	MCF-7	breast:	n/a	n/a

No data

(count:1 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:86160634..86163569-chr13:86372135..86374824,2	MCF-7	breast:

No data

Variant related genes	Relation type
RNU6-72P	TF binding region
ENSG00000184564	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs61968557	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61968660	1.00[ASN][1000 genomes]
rs61968661	1.00[ASN][1000 genomes]
rs61968700	1.00[ASN][1000 genomes]
rs61970066	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61970069	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61970071	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61970093	1.00[ASN][1000 genomes]
rs61970113	1.00[ASN][1000 genomes]
rs61970114	1.00[ASN][1000 genomes]
rs7139759	1.00[ASN][1000 genomes]
rs7317871	1.00[ASN][1000 genomes]
rs7332606	1.00[ASN][1000 genomes]
rs7338891	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916866	chr13:85505771-86241562	Active TSS Enhancers Genic enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1050105	chr13:85524968-86218429	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv541857	chr13:85524968-86218429	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	esv2752724	chr13:85810499-86320999	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1037563	chr13:85830511-86414012	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1053499	chr13:85959321-86197157	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv541859	chr13:85959321-86197157	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv471162	chr13:85994700-86296819	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv456051	chr13:85994700-86306452	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv562609	chr13:85994700-86306452	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv428608	chr13:86109178-86262577	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:86156000-86162400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr13:86159600-86161200	Weak transcription	A549	lung
3	chr13:86159800-86162600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr13:86160200-86164000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr13:86160600-86161400	Enhancers	Dnd41	blood
6	chr13:86160600-86161600	Enhancers	Hela-S3	cervix
7	chr13:86160800-86162000	Enhancers	HMEC	breast
8	chr13:86161000-86161600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr13:86161000-86161600	Enhancers	NH-A	brain
10	chr13:86161000-86161600	Enhancers	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links