Variant report

Variant	rs4647354
Chromosome Location	chr9:98079166-98079167
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr13:27745463..27746171-chr9:98079163..98079950,2	Hela-S3	cervix:
2	chr9:98053145..98055941-chr9:98078860..98081367,2	MCF-7	breast:
3	chr9:98078160..98080305-chr9:98637483..98639375,2	MCF-7	breast:
4	chr12:54718630..54719580-chr9:98079060..98080316,3	Hela-S3	cervix:
5	chr17:40540218..40543029-chr9:98077707..98079432,2	MCF-7	breast:
6	chr9:98078552..98082181-chr9:98188850..98192317,4	MCF-7	breast:
7	chr6:32939613..32940373-chr9:98078926..98079769,3	Hela-S3	cervix:
8	chr9:98078123..98080907-chr9:98268002..98270715,3	K562	blood:
9	chr6:26158003..26158604-chr9:98078847..98079535,2	HCT-116	colon:
10	chr9:98078830..98081414-chr9:98266391..98270806,3	MCF-7	breast:
11	chr9:98078194..98081816-chr9:98277777..98279552,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000237857	Chromatin interaction
ENSG00000204256	Chromatin interaction
ENSG00000182150	Chromatin interaction
ENSG00000185920	Chromatin interaction
ENSG00000175611	Chromatin interaction
ENSG00000168610	Chromatin interaction
ENSG00000230221	Chromatin interaction
ENSG00000111481	Chromatin interaction
ENSG00000158373	Chromatin interaction
ENSG00000152484	Chromatin interaction
ENSG00000271155	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs12683182	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.89[ASN][1000 genomes]
rs12684215	0.89[ASN][1000 genomes]
rs12685903	0.89[ASN][1000 genomes]
rs12686588	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.89[ASN][1000 genomes]
rs1875835	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1886993	0.89[ASN][1000 genomes]
rs2121200	0.89[ASN][1000 genomes]
rs2404458	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs35108112	0.89[ASN][1000 genomes]
rs3780566	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs400727	0.85[JPT][hapmap]
rs4647352	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4647360	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4647367	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4647378	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4647386	0.89[ASN][1000 genomes]
rs4647387	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4647397	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4647398	0.89[ASN][1000 genomes]
rs4647402	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4647405	0.89[ASN][1000 genomes]
rs4647408	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.89[ASN][1000 genomes]
rs4647414	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.89[ASN][1000 genomes]
rs4647436	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4647437	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4647449	0.89[ASN][1000 genomes]
rs4647465	0.89[ASN][1000 genomes]
rs4647466	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4647472	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4647473	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4647477	0.89[ASN][1000 genomes]
rs4647484	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.89[ASN][1000 genomes]
rs4647485	0.89[ASN][1000 genomes]
rs4647486	0.89[ASN][1000 genomes]
rs4647491	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4647493	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.89[ASN][1000 genomes]
rs4647508	0.89[ASN][1000 genomes]
rs4647509	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4647510	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4647514	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.89[ASN][1000 genomes]
rs4647516	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs60228132	0.89[ASN][1000 genomes]
rs7037729	0.89[ASN][1000 genomes]
rs73530498	0.89[ASN][1000 genomes]
rs73532103	0.89[ASN][1000 genomes]
rs73534887	0.89[ASN][1000 genomes]
rs73534888	0.89[ASN][1000 genomes]
rs73534898	0.89[ASN][1000 genomes]
rs7854840	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs9792415	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.89[ASN][1000 genomes]
rs9792481	0.89[ASN][1000 genomes]
rs9792533	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.89[ASN][1000 genomes]
rs9792691	0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831657	chr9:97959274-98204769	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
2	nsv531633	chr9:98078300-98431120	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98075600-98079200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr9:98075800-98079200	Weak transcription	Gastric	stomach
3	chr9:98075800-98079200	Weak transcription	Small Intestine	intestine
4	chr9:98077400-98080400	Active TSS	GM12878-XiMat	blood
5	chr9:98078400-98079200	Flanking Active TSS	HUVEC	blood vessel
6	chr9:98078400-98080400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr9:98078400-98080600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr9:98078400-98080800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr9:98078600-98079200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
10	chr9:98078600-98079200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
11	chr9:98078600-98079200	Flanking Active TSS	Brain Angular Gyrus	brain
12	chr9:98078600-98079200	Flanking Active TSS	Brain Germinal Matrix	brain
13	chr9:98078600-98079200	Flanking Active TSS	Duodenum Mucosa	Duodenum
14	chr9:98078600-98079200	Flanking Active TSS	Fetal Thymus	thymus
15	chr9:98078600-98079200	Flanking Active TSS	Dnd41	blood
16	chr9:98078600-98079200	Flanking Active TSS	Hela-S3	cervix
17	chr9:98078600-98079400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
18	chr9:98078600-98080400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr9:98078600-98080400	Active TSS	Primary T cells from cord blood	blood
20	chr9:98078600-98080400	Active TSS	Colonic Mucosa	Colon
21	chr9:98078600-98080600	Active TSS	ES-I3 Cell Line	embryonic stem cell
22	chr9:98078600-98080600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
23	chr9:98078600-98080600	Active TSS	H1 Cell Line	embryonic stem cell
24	chr9:98078600-98080600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr9:98078600-98080600	Active TSS	Brain Inferior Temporal Lobe	brain
26	chr9:98078600-98080600	Active TSS	Fetal Brain Male	brain
27	chr9:98078600-98080600	Active TSS	Fetal Kidney	kidney
28	chr9:98078600-98080600	Active TSS	Fetal Muscle Trunk	muscle
29	chr9:98078600-98080600	Active TSS	Stomach Smooth Muscle	stomach
30	chr9:98078600-98080600	Active TSS	Thymus	Thymus
31	chr9:98078800-98079200	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
32	chr9:98078800-98079200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
33	chr9:98078800-98079200	Flanking Active TSS	Brain Hippocampus Middle	brain
34	chr9:98078800-98079200	Active TSS	Right Atrium	heart
35	chr9:98078800-98079400	Flanking Active TSS	Primary B cells from cord blood	blood
36	chr9:98078800-98079400	Flanking Active TSS	Primary hematopoietic stem cells	blood
37	chr9:98078800-98079400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
38	chr9:98078800-98079400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr9:98078800-98080200	Active TSS	HepG2	liver
40	chr9:98078800-98080400	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr9:98078800-98080400	Active TSS	iPS-20b Cell Line	embryonic stem cell
42	chr9:98078800-98080400	Active TSS	Fetal Intestine Small	intestine
43	chr9:98078800-98080400	Active TSS	Placenta Amnion	Placenta Amnion
44	chr9:98078800-98080400	Active TSS	Right Ventricle	heart
45	chr9:98078800-98080600	Active TSS	H9 Cell Line	embryonic stem cell
46	chr9:98078800-98080600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr9:98078800-98080600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr9:98078800-98080600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr9:98078800-98080600	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr9:98078800-98080600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links