Variant report

Variant	rs9853532
Chromosome Location	chr3:23964590-23964591
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:23961452..23965156-chr3:23999587..24004253,5	MCF-7	breast:
2	chr3:23962952..23965260-chr3:25704895..25707086,2	MCF-7	breast:
3	chr3:23961544..23965594-chr3:24039129..24042717,4	K562	blood:
4	chr3:23954505..23971330-chr3:23977357..23992645,61	MCF-7	breast:
5	chr3:23956631..23966740-chr3:23975650..23993173,64	MCF-7	breast:
6	chr3:23963756..23966294-chr3:24189854..24192332,2	K562	blood:

Variant related genes	Relation type
ENSG00000197885	Chromatin interaction
ENSG00000264219	Chromatin interaction
ENSG00000077097	Chromatin interaction
ENSG00000174738	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11717862	0.88[ASN][1000 genomes]
rs12631785	0.89[EUR][1000 genomes]
rs13091509	0.97[ASN][1000 genomes]
rs4241515	0.93[ASN][1000 genomes]
rs4241517	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4241520	0.90[ASN][1000 genomes]
rs4321479	0.88[ASN][1000 genomes]
rs4858098	0.88[ASN][1000 genomes]
rs4858567	0.88[ASN][1000 genomes]
rs4858569	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6550814	0.90[ASN][1000 genomes]
rs6550815	0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6550819	0.88[ASN][1000 genomes]
rs6762238	0.87[EUR][1000 genomes]
rs6794922	0.90[ASN][1000 genomes]
rs6807856	0.87[EUR][1000 genomes]
rs7431301	0.88[ASN][1000 genomes]
rs7636810	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9842907	0.86[EUR][1000 genomes]
rs9882735	0.83[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	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv834638	chr3:23963860-24117191	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23959600-23965200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr3:23959600-23965600	Weak transcription	Spleen	Spleen
3	chr3:23959600-23969400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:23959800-23965000	Weak transcription	Ovary	ovary
5	chr3:23960000-23965000	Weak transcription	Colonic Mucosa	Colon
6	chr3:23960200-23967000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:23960200-23969400	Weak transcription	Esophagus	oesophagus
8	chr3:23960400-23964600	Strong transcription	Fetal Muscle Leg	muscle
9	chr3:23960600-23964800	Strong transcription	Brain Germinal Matrix	brain
10	chr3:23960600-23965000	Strong transcription	Fetal Stomach	stomach
11	chr3:23960800-23965000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr3:23961000-23964600	Strong transcription	Fetal Muscle Trunk	muscle
13	chr3:23961000-23966600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr3:23961400-23966000	Strong transcription	Stomach Smooth Muscle	stomach
15	chr3:23961600-23964600	Strong transcription	Lung	lung
16	chr3:23961800-23972800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr3:23961800-23980200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr3:23962000-23964600	Strong transcription	Brain Inferior Temporal Lobe	brain
19	chr3:23962000-23964800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr3:23962000-23964800	Weak transcription	Small Intestine	intestine
21	chr3:23962000-23965000	Weak transcription	HSMMtube	muscle
22	chr3:23962000-23965200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr3:23962000-23965400	Strong transcription	Fetal Brain Female	brain
24	chr3:23962000-23965600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr3:23962000-23965600	Strong transcription	Colon Smooth Muscle	Colon
26	chr3:23962000-23968200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr3:23962000-23968400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr3:23962000-23968800	Weak transcription	NHEK	skin
29	chr3:23962000-23969000	Weak transcription	Fetal Brain Male	brain
30	chr3:23962000-23969000	Weak transcription	Fetal Kidney	kidney
31	chr3:23962000-23969400	Weak transcription	Pancreas	Pancrea
32	chr3:23962000-23969600	Weak transcription	Gastric	stomach
33	chr3:23962000-23970000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr3:23962000-23972800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr3:23962000-23974800	Weak transcription	Brain Substantia Nigra	brain
36	chr3:23962000-23977800	Weak transcription	Placenta Amnion	Placenta Amnion
37	chr3:23962000-23985600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
38	chr3:23962200-23964600	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr3:23962200-23964800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr3:23962200-23965400	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr3:23962200-23965400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
42	chr3:23962200-23965800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
43	chr3:23962200-23967800	Weak transcription	Primary neutrophils fromperipheralblood	blood
44	chr3:23962200-23968800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr3:23962200-23969000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr3:23962200-23970000	Weak transcription	Hela-S3	cervix
47	chr3:23962400-23964600	Weak transcription	H1 Cell Line	embryonic stem cell
48	chr3:23962400-23965200	Weak transcription	Osteobl	bone
49	chr3:23962400-23965600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
50	chr3:23962400-23968800	Weak transcription	HepG2	liver

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