Variant report

Variant	rs1006436
Chromosome Location	chr16:72232316-72232317
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:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10400963	0.82[JPT][hapmap]
rs10852511	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs11075924	0.95[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs11643192	0.86[JPT][hapmap]
rs12325266	0.87[JPT][hapmap]
rs12449073	0.82[JPT][hapmap]
rs12918956	0.93[ASN][1000 genomes]
rs12930285	0.93[ASN][1000 genomes]
rs12932845	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs2070937	0.82[CHB][hapmap]
rs2070939	0.83[CHB][hapmap]
rs2241411	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs2288000	0.83[CHB][hapmap]
rs2288002	0.82[CHB][hapmap]
rs2550868	0.86[CHB][hapmap]
rs3812984	0.91[CHB][hapmap];0.91[JPT][hapmap];0.91[ASN][1000 genomes]
rs3812986	0.86[CHB][hapmap]
rs3844425	0.91[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs3844426	0.87[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs3852782	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs3852784	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs3852786	0.93[ASN][1000 genomes]
rs3852787	0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs3909541	0.95[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs4238964	0.82[JPT][hapmap]
rs4788464	0.88[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs4788609	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs4788610	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs6499564	0.82[ASN][1000 genomes]
rs7192848	0.86[JPT][hapmap]
rs7193559	0.91[ASN][1000 genomes]
rs7200003	0.81[ASN][1000 genomes]
rs7201225	0.86[JPT][hapmap]
rs7201643	0.82[CHB][hapmap]
rs7203426	0.83[CHB][hapmap]
rs7940	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs8052338	0.82[JPT][hapmap]
rs8059437	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs9924964	0.89[CHB][hapmap]
rs9927526	0.91[CHB][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs9928157	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs9932951	0.86[CHB][hapmap];0.81[JPT][hapmap]
rs9936642	0.86[JPT][hapmap]
rs9936784	0.92[AFR][1000 genomes];0.99[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

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:72214800-72232800	Weak transcription	Pancreas	Pancrea
2	chr16:72222000-72235800	Weak transcription	Duodenum Mucosa	Duodenum
3	chr16:72223000-72236400	Weak transcription	Primary B cells from cord blood	blood
4	chr16:72228600-72236600	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr16:72228800-72236600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr16:72229200-72232800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr16:72229200-72234400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr16:72229200-72240200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr16:72230400-72232800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr16:72230800-72232400	Enhancers	Brain Hippocampus Middle	brain
11	chr16:72231000-72233200	Enhancers	Fetal Stomach	stomach
12	chr16:72231000-72234200	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr16:72231000-72234600	Enhancers	Fetal Lung	lung
14	chr16:72231200-72233000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr16:72231200-72233200	Enhancers	Fetal Muscle Trunk	muscle
16	chr16:72231200-72234000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr16:72231400-72232600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr16:72231400-72232600	Enhancers	NHDF-Ad	bronchial
19	chr16:72231400-72232800	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr16:72231400-72233000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr16:72231400-72233000	Enhancers	Duodenum Smooth Muscle	Duodenum
22	chr16:72231400-72233200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr16:72231400-72233200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr16:72231400-72234000	Enhancers	Fetal Muscle Leg	muscle
25	chr16:72231600-72232400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr16:72231600-72232400	Flanking Active TSS	Brain Anterior Caudate	brain
27	chr16:72231600-72232400	Enhancers	Osteobl	bone
28	chr16:72231600-72232600	Flanking Active TSS	Fetal Brain Female	brain
29	chr16:72231800-72232400	Enhancers	Skeletal Muscle Male	skeletal muscle
30	chr16:72231800-72232600	Flanking Active TSS	Brain Substantia Nigra	brain
31	chr16:72231800-72232600	Enhancers	NH-A	brain
32	chr16:72231800-72233200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
33	chr16:72232000-72232400	Active TSS	Brain Angular Gyrus	brain
34	chr16:72232000-72233000	Weak transcription	Right Atrium	heart
35	chr16:72232000-72234000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
36	chr16:72232000-72234200	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr16:72232000-72236600	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr16:72232200-72232600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr16:72232200-72232600	Flanking Active TSS	Brain Germinal Matrix	brain
40	chr16:72232200-72232600	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
41	chr16:72232200-72232800	Active TSS	Brain Cingulate Gyrus	brain
42	chr16:72232200-72236000	Enhancers	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links