Variant report

Variant	rs785936
Chromosome Location	chr9:79093664-79093665
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	chr9:79091609..79094063-chr9:79133864..79136159,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10119532	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.90[MEX][hapmap];0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10735646	0.82[JPT][hapmap]
rs11144922	0.98[ASN][1000 genomes]
rs12237420	0.98[ASN][1000 genomes]
rs12344941	0.86[CHB][hapmap]
rs2501925	0.83[GIH][hapmap]
rs3739516	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs4526423	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4745551	0.95[CHB][hapmap];0.87[CHD][hapmap];0.83[ASN][1000 genomes]
rs4745552	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.98[ASN][1000 genomes]
rs509326	0.81[AMR][1000 genomes]
rs62565112	0.89[ASN][1000 genomes]
rs62565119	0.98[ASN][1000 genomes]
rs7019479	0.96[ASN][1000 genomes]
rs7465809	0.95[ASN][1000 genomes]
rs7858497	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs785933	0.81[AMR][1000 genomes]
rs785934	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7862822	0.95[ASN][1000 genomes]
rs7871849	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv893478	chr9:78933874-79101006	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats 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	15 gene(s)	inside rSNPs	diseases
4	nsv893479	chr9:78971253-79275226	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer 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	26 gene(s)	inside rSNPs	diseases
5	nsv949417	chr9:79078703-79282589	Strong transcription Genic enhancers Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs785936	ZFAND5	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79075400-79101000	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr9:79075600-79117800	Weak transcription	Primary T cells from cord blood	blood
3	chr9:79080800-79117200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr9:79081800-79117200	Weak transcription	Gastric	stomach
5	chr9:79082600-79117600	Weak transcription	NHLF	lung
6	chr9:79087600-79117400	Weak transcription	Colonic Mucosa	Colon
7	chr9:79088400-79097000	Weak transcription	Stomach Mucosa	stomach
8	chr9:79088800-79093800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr9:79089000-79100800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr9:79089000-79103400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr9:79089000-79116400	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr9:79090000-79094000	Strong transcription	Osteobl	bone
13	chr9:79090400-79094200	Strong transcription	Muscle Satellite Cultured Cells	--
14	chr9:79090600-79094200	Strong transcription	Duodenum Mucosa	Duodenum
15	chr9:79091200-79108800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr9:79092200-79093800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr9:79092200-79093800	Strong transcription	Fetal Intestine Large	intestine
18	chr9:79092400-79093800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr9:79092400-79093800	Strong transcription	HMEC	breast
20	chr9:79092400-79093800	Strong transcription	HSMM	muscle
21	chr9:79092600-79093800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
22	chr9:79092600-79093800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
23	chr9:79092600-79093800	Strong transcription	Primary hematopoietic stem cells	blood
24	chr9:79092600-79094200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr9:79092800-79093800	ZNF genes & repeats	Primary B cells from cord blood	blood
26	chr9:79092800-79093800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr9:79093000-79093800	Strong transcription	H1 Cell Line	embryonic stem cell
28	chr9:79093000-79093800	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
29	chr9:79093000-79093800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
30	chr9:79093000-79093800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr9:79093000-79094200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr9:79093200-79093800	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
33	chr9:79093200-79093800	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
34	chr9:79093200-79093800	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
35	chr9:79093200-79093800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr9:79093200-79093800	Strong transcription	Primary B cells from peripheral blood	blood
37	chr9:79093200-79093800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr9:79093200-79093800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr9:79093200-79093800	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
40	chr9:79093200-79094200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr9:79093400-79094200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr9:79093400-79095400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr9:79093400-79101200	Weak transcription	Primary monocytes fromperipheralblood	blood
44	chr9:79093400-79102800	Weak transcription	Lung	lung
45	chr9:79093400-79142800	Weak transcription	Fetal Stomach	stomach
46	chr9:79093600-79095400	Weak transcription	Fetal Intestine Small	intestine
47	chr9:79093600-79100800	Weak transcription	Monocytes-CD14+_RO01746	blood
48	chr9:79093600-79103600	Weak transcription	Fetal Thymus	thymus
49	chr9:79093600-79111400	Weak transcription	NHDF-Ad	bronchial
50	chr9:79093600-79117200	Weak transcription	Rectal Mucosa Donor 31	rectum

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