Variant report

Variant	rs9937351
Chromosome Location	chr16:72234472-72234473
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	chr16:72231856..72234002-chr16:72234236..72237028,2	MCF-7	breast:
2	chr16:72218425..72220336-chr16:72232606..72234720,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10492816	0.92[ASN][1000 genomes]
rs12325274	0.91[ASN][1000 genomes]
rs12447857	0.87[ASN][1000 genomes]
rs16970670	0.91[ASN][1000 genomes]
rs16970692	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34508528	0.91[ASN][1000 genomes]
rs35959677	0.83[ASN][1000 genomes]
rs66929555	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7185448	0.87[ASN][1000 genomes]
rs7186908	0.90[ASN][1000 genomes]
rs7198572	0.82[GIH][hapmap]
rs7202323	0.90[ASN][1000 genomes]
rs7203307	0.87[ASN][1000 genomes]
rs8054585	0.92[ASN][1000 genomes]
rs9923575	0.92[ASN][1000 genomes]
rs9931993	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948468	chr16:71727571-72651914	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	89 gene(s)	inside rSNPs	diseases
2	esv2758430	chr16:71976344-72274347	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
3	esv2758654	chr16:71976344-72274347	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv428329	chr16:71976344-72274347	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
5	nsv1060983	chr16:72074832-72791629	Genic enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
6	nsv534588	chr16:72078262-72287230	ZNF genes & repeats Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
7	nsv1060804	chr16:72078486-72791629	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
8	nsv1059599	chr16:72219769-72342170	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv1066473	chr16:72229094-72373598	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs9937351	WWP2	cis	parietal	SCAN
rs9937351	PMFBP1	cis	multi-tissue	Pritchard
rs9937351	PDPR	cis	parietal	SCAN
rs9937351	SLC12A4	cis	parietal	SCAN

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:72222000-72235800	Weak transcription	Duodenum Mucosa	Duodenum
2	chr16:72223000-72236400	Weak transcription	Primary B cells from cord blood	blood
3	chr16:72228600-72236600	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr16:72228800-72236600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr16:72229200-72240200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr16:72231000-72234600	Enhancers	Fetal Lung	lung
7	chr16:72232000-72236600	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr16:72232200-72236000	Enhancers	Fetal Brain Male	brain
9	chr16:72232400-72237000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr16:72232600-72234600	Enhancers	Brain Angular Gyrus	brain
11	chr16:72232600-72234600	Enhancers	Brain Substantia Nigra	brain
12	chr16:72232600-72235400	Enhancers	Fetal Brain Female	brain
13	chr16:72232600-72236000	Weak transcription	NHDF-Ad	bronchial
14	chr16:72233000-72234600	Enhancers	Brain Cingulate Gyrus	brain
15	chr16:72233000-72237200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr16:72233000-72240400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr16:72233200-72235000	Enhancers	Brain Anterior Caudate	brain
18	chr16:72233200-72235800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr16:72233200-72235800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr16:72233200-72236000	Weak transcription	Pancreas	Pancrea
21	chr16:72233200-72240000	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr16:72233800-72235400	Enhancers	Brain Germinal Matrix	brain
23	chr16:72233800-72237000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr16:72234000-72236400	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr16:72234000-72236600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr16:72234000-72237000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr16:72234200-72235800	Enhancers	Pancreatic Islets	Pancreatic Islet
28	chr16:72234200-72236600	Enhancers	Monocytes-CD14+_RO01746	blood
29	chr16:72234200-72237600	Enhancers	Primary monocytes fromperipheralblood	blood
30	chr16:72234400-72235000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr16:72234400-72236600	Weak transcription	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links