Variant report

Variant	rs10472359
Chromosome Location	chr5:41921714-41921715
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr5:41917385-41928379	K562	blood:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:41866693..41874585-chr5:41920680..41930326,14	K562	blood:
2	chr5:41920030..41922138-chr5:41926101..41928998,2	MCF-7	breast:
3	chr5:41915614..41918247-chr5:41921334..41923121,2	MCF-7	breast:
4	chr5:41864208..41872390-chr5:41920936..41926995,11	K562	blood:
5	chr5:41917819..41920198-chr5:41921685..41923915,2	MCF-7	breast:
6	chr5:41904013..41906078-chr5:41920302..41923061,3	MCF-7	breast:
7	chr5:41903408..41905883-chr5:41920189..41922331,2	MCF-7	breast:

No data

Variant related genes	Relation type
FBXO4	TF binding region
ENSG00000083720	Chromatin interaction
ENSG00000248668	Chromatin interaction
ENSG00000205765	Chromatin interaction

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs10035434	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10040757	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10043326	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10043371	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10044526	0.88[AMR][1000 genomes]
rs10045473	0.87[EUR][1000 genomes]
rs10051322	0.87[EUR][1000 genomes]
rs10052226	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10053522	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10054130	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10057546	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10057587	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10057645	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10059424	0.85[EUR][1000 genomes]
rs10060170	0.87[EUR][1000 genomes]
rs10062703	0.87[EUR][1000 genomes]
rs10064298	0.87[EUR][1000 genomes]
rs10064380	0.92[EUR][1000 genomes]
rs10065016	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10065335	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10069638	0.87[EUR][1000 genomes]
rs10070201	0.87[EUR][1000 genomes]
rs10075429	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10076689	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10077481	0.92[EUR][1000 genomes]
rs10078011	0.82[EUR][1000 genomes]
rs10079651	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1027348	0.82[EUR][1000 genomes]
rs10472357	0.87[EUR][1000 genomes]
rs10473252	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10473255	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11738449	0.82[AMR][1000 genomes]
rs11738956	0.82[EUR][1000 genomes]
rs11742939	0.82[AMR][1000 genomes]
rs11745460	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11745530	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11746530	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11747648	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11748933	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13355194	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13357951	0.87[EUR][1000 genomes]
rs13358459	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13360765	0.88[AMR][1000 genomes]
rs1567323	0.87[EUR][1000 genomes]
rs16872052	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16872094	0.85[AMR][1000 genomes]
rs16872097	0.88[AMR][1000 genomes]
rs16872100	0.82[AMR][1000 genomes]
rs17339188	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1813615	0.82[AMR][1000 genomes]
rs1813616	0.82[AMR][1000 genomes]
rs2011105	0.82[AMR][1000 genomes]
rs2231910	0.87[EUR][1000 genomes]
rs28647448	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34493032	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35890705	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4957178	0.87[EUR][1000 genomes]
rs4957180	0.87[EUR][1000 genomes]
rs4957436	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs4957437	0.87[EUR][1000 genomes]
rs4957438	0.87[EUR][1000 genomes]
rs61058110	0.82[EUR][1000 genomes]
rs67152480	0.82[EUR][1000 genomes]
rs72746926	0.82[EUR][1000 genomes]
rs72746928	0.82[EUR][1000 genomes]
rs72746930	0.82[EUR][1000 genomes]
rs72746932	0.82[EUR][1000 genomes]
rs72746933	0.80[EUR][1000 genomes]
rs72746952	0.82[EUR][1000 genomes]
rs72746966	0.82[EUR][1000 genomes]
rs72746968	0.82[EUR][1000 genomes]
rs72746975	0.82[EUR][1000 genomes]
rs72746983	0.83[EUR][1000 genomes]
rs72746985	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72746995	0.87[EUR][1000 genomes]
rs72746996	0.92[EUR][1000 genomes]
rs72746997	0.92[EUR][1000 genomes]
rs72746999	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72747000	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72747001	0.87[EUR][1000 genomes]
rs72747002	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72748607	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72748608	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72748609	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72748611	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72748613	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72748614	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72748616	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72748619	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72748620	0.87[EUR][1000 genomes]
rs72748635	0.85[AMR][1000 genomes]
rs72748641	0.82[AMR][1000 genomes]
rs7341062	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7712106	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7723992	0.87[EUR][1000 genomes]
rs9292826	0.82[EUR][1000 genomes]
rs9292828	0.82[EUR][1000 genomes]
rs9292832	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9885033	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9885117	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs989747	0.82[AMR][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	esv2762518	chr5:41780210-41935113	Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	108 gene(s)	inside rSNPs	diseases
2	nsv830272	chr5:41833365-41986167	Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	111 gene(s)	inside rSNPs	diseases
3	nsv830273	chr5:41867296-42066070	Flanking Active TSS Active TSS Genic enhancers Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	111 gene(s)	inside rSNPs	diseases
4	nsv933208	chr5:41879946-42876624	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	112 gene(s)	inside rSNPs	diseases
5	nsv492147	chr5:41902086-42896162	Enhancers Flanking Active TSS Active TSS Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	113 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:41905000-41924800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr5:41905200-41925000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr5:41905600-41924600	Weak transcription	Small Intestine	intestine
4	chr5:41905800-41922200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr5:41905800-41923800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr5:41905800-41924400	Weak transcription	Stomach Mucosa	stomach
7	chr5:41905800-41925000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr5:41905800-41925000	Weak transcription	Gastric	stomach
9	chr5:41906400-41922200	Strong transcription	Fetal Muscle Trunk	muscle
10	chr5:41906800-41924600	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr5:41907000-41922200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr5:41907000-41923600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr5:41907200-41922400	Strong transcription	Liver	Liver
14	chr5:41907800-41922200	Strong transcription	Fetal Thymus	thymus
15	chr5:41907800-41922400	Strong transcription	Monocytes-CD14+_RO01746	blood
16	chr5:41908000-41922400	Strong transcription	Adipose Nuclei	Adipose
17	chr5:41908200-41922000	Strong transcription	Primary hematopoietic stem cells	blood
18	chr5:41908200-41922400	Strong transcription	Dnd41	blood
19	chr5:41909200-41924600	Weak transcription	Fetal Heart	heart
20	chr5:41911200-41922000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr5:41913200-41921800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr5:41913200-41925000	Weak transcription	Esophagus	oesophagus
23	chr5:41913400-41925000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr5:41914800-41924800	Weak transcription	Pancreas	Pancrea
25	chr5:41915000-41922400	Strong transcription	Primary monocytes fromperipheralblood	blood
26	chr5:41915200-41925000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr5:41915400-41923400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr5:41915800-41924600	Weak transcription	Brain Angular Gyrus	brain
29	chr5:41916000-41924800	Weak transcription	Right Ventricle	heart
30	chr5:41916000-41925000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr5:41916400-41922400	Strong transcription	Primary T helper cells PMA-I stimulated	--
32	chr5:41917000-41921800	Strong transcription	K562	blood
33	chr5:41917200-41922400	Strong transcription	Brain Anterior Caudate	brain
34	chr5:41917400-41924800	Weak transcription	Colonic Mucosa	Colon
35	chr5:41918600-41924800	Weak transcription	Fetal Brain Male	brain
36	chr5:41919000-41921800	Weak transcription	HMEC	breast
37	chr5:41919000-41924400	Weak transcription	Brain Cingulate Gyrus	brain
38	chr5:41919000-41924400	Weak transcription	NHDF-Ad	bronchial
39	chr5:41919000-41924600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr5:41919000-41924600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr5:41919000-41924600	Weak transcription	Fetal Intestine Small	intestine
42	chr5:41919000-41924800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr5:41919400-41924400	Weak transcription	Colon Smooth Muscle	Colon
44	chr5:41919600-41924600	Weak transcription	Fetal Stomach	stomach
45	chr5:41919800-41921800	Weak transcription	Osteobl	bone
46	chr5:41919800-41924800	Weak transcription	Aorta	Aorta
47	chr5:41920000-41924600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
48	chr5:41920000-41924800	Weak transcription	H9 Cell Line	embryonic stem cell
49	chr5:41920000-41924800	Weak transcription	NHLF	lung
50	chr5:41920200-41924600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links