Variant report

Variant	rs11795201
Chromosome Location	chr9:101568258-101568259
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA3	chr9:101567598-101568510	MCF-7	breast:	n/a	chr9:101568253-101568264
2	SIN3AK20	chr9:101567807-101568682	MCF-7	breast:	n/a	n/a
3	STAT3	chr9:101567766-101568441	MCF10A-Er-Src	breast:	n/a	n/a
4	GATA3	chr9:101567515-101568532	MCF-7	breast:	n/a	chr9:101568253-101568264
5	MYC	chr9:101567797-101568455	MCF10A-Er-Src	breast:	n/a	n/a
6	RFX5	chr9:101567316-101568431	IMR90	lung:	n/a	n/a
7	GATA2	chr9:101568123-101568551	SH-SY5Y	brain:	n/a	chr9:101568253-101568264
8	GATA3	chr9:101568076-101568470	T-47D	breast:	n/a	chr9:101568253-101568264
9	GATA3	chr9:101568129-101568388	MCF-7	breast:	n/a	chr9:101568253-101568264
10	NR2F2	chr9:101568021-101568569	MCF-7	breast:	n/a	n/a
11	MYC	chr9:101567755-101568408	MCF10A-Er-Src	breast:	n/a	n/a
12	FOS	chr9:101567711-101568464	MCF10A-Er-Src	breast:	n/a	n/a
13	STAT3	chr9:101567798-101568346	MCF10A-Er-Src	breast:	n/a	n/a
14	ZNF217	chr9:101568058-101568387	MCF-7	breast:	n/a	n/a
15	E2F4	chr9:101567763-101568339	MCF10A-Er-Src	breast:	n/a	n/a
16	FOS	chr9:101567759-101568398	MCF10A-Er-Src	breast:	n/a	n/a
17	FOS	chr9:101567745-101568438	MCF10A-Er-Src	breast:	n/a	n/a
18	GATA3	chr9:101567694-101568732	MCF-7	breast:	n/a	chr9:101568253-101568264
19	FOS	chr9:101567737-101568426	MCF10A-Er-Src	breast:	n/a	n/a
20	GATA3	chr9:101568025-101568431	T-47D	breast:	n/a	chr9:101568253-101568264

No.	Distal block	Cell Line	Cell type
1	chr9:101567600..101569220-chr9:101571487..101573916,3	MCF-7	breast:
2	chr9:101567740..101569488-chr9:101580448..101582310,2	K562	blood:
3	chr9:101556573..101560424-chr9:101566029..101574080,12	MCF-7	breast:
4	chr9:101550194..101555244-chr9:101566657..101571786,8	MCF-7	breast:
5	chr9:101551293..101553847-chr9:101568036..101571328,4	K562	blood:
6	chr9:101557242..101560519-chr9:101566443..101572716,8	MCF-7	breast:
7	chr9:101568251..101569109-chr9:101760833..101761361,2	MCF-7	breast:

Variant related genes	Relation type
GALNT12	TF binding region
ENSG00000165138	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11787982	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11788506	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11788953	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11789133	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11790188	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11790900	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11791355	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11791408	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11792301	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11792605	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11793007	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11793365	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11794260	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11794814	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11794957	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28397053	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28512311	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35229220	1.00[EUR][1000 genomes]
rs41283626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41283630	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45543535	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57882865	1.00[ASN][1000 genomes]
rs61025806	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61335015	1.00[ASN][1000 genomes]
rs73491756	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv614936	chr9:101182698-101680380	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv893614	chr9:101340316-101671634	Enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv893615	chr9:101356515-101678036	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101559600-101569000	Weak transcription	Pancreas	Pancrea
2	chr9:101559600-101569600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr9:101562600-101569400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr9:101565400-101569000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr9:101566200-101569200	Weak transcription	Fetal Stomach	stomach
6	chr9:101567200-101568800	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr9:101567400-101569200	Weak transcription	Fetal Lung	lung
8	chr9:101567400-101569400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr9:101567400-101569400	Enhancers	Fetal Intestine Small	intestine
10	chr9:101567400-101569400	Enhancers	K562	blood
11	chr9:101567400-101569600	Enhancers	HMEC	breast
12	chr9:101567600-101568600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
13	chr9:101567600-101568600	Enhancers	Sigmoid Colon	Sigmoid Colon
14	chr9:101567600-101569200	Enhancers	Colonic Mucosa	Colon
15	chr9:101567600-101569400	Enhancers	Duodenum Mucosa	Duodenum
16	chr9:101567600-101569400	Enhancers	Esophagus	oesophagus
17	chr9:101567600-101569400	Enhancers	Fetal Intestine Large	intestine
18	chr9:101567600-101569600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr9:101567600-101569600	Enhancers	Gastric	stomach
20	chr9:101567600-101569600	Enhancers	NHEK	skin
21	chr9:101567600-101570000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr9:101567800-101568600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr9:101567800-101568600	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
24	chr9:101567800-101568800	Enhancers	Primary hematopoietic stem cells short term culture	blood
25	chr9:101567800-101569000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr9:101567800-101569400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr9:101567800-101569400	Weak transcription	Right Ventricle	heart
28	chr9:101567800-101569400	Enhancers	Stomach Mucosa	stomach
29	chr9:101567800-101569800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
30	chr9:101567800-101569800	Flanking Active TSS	Stomach Smooth Muscle	stomach
31	chr9:101568000-101569200	Weak transcription	Spleen	Spleen
32	chr9:101568000-101569400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr9:101568200-101568400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr9:101568200-101568400	Enhancers	Duodenum Smooth Muscle	Duodenum
35	chr9:101568200-101568600	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr9:101568200-101568600	Flanking Active TSS	Rectal Smooth Muscle	rectum
37	chr9:101568200-101569000	Enhancers	Colon Smooth Muscle	Colon
38	chr9:101568200-101569800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links