Variant report

Variant	rs10496439
Chromosome Location	chr2:112664631-112664632
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:112661966..112663784-chr2:112664402..112668522,3	K562	blood:
2	chr2:112661215..112662766-chr2:112664404..112666114,2	MCF-7	breast:
3	chr2:112661967..112663784-chr2:112664402..112666551,2	K562	blood:

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10176769	0.81[JPT][hapmap]
rs10192602	0.81[ASN][1000 genomes]
rs10192728	0.81[JPT][hapmap]
rs10195619	0.92[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs10864895	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1122970	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11673729	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11674226	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11674883	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11674891	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11675946	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11678522	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11679801	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11680463	0.82[EUR][1000 genomes]
rs11681063	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11682629	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11683694	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11684321	0.92[CEU][hapmap];0.90[JPT][hapmap];0.84[EUR][1000 genomes]
rs11685190	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11686647	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11687451	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11692445	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13001162	0.88[CEU][hapmap]
rs13003919	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13006203	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13013340	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13013943	0.84[ASN][1000 genomes]
rs13020304	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13020353	0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13025651	0.82[EUR][1000 genomes]
rs13027171	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13033393	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1554216	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17174697	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17779482	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1967530	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2271701	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2871876	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34527376	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34705448	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34875611	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34928784	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34974369	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34983493	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35189728	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35379879	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35382200	0.81[EUR][1000 genomes]
rs35471545	0.81[ASN][1000 genomes]
rs35507976	0.89[EUR][1000 genomes]
rs35643003	0.81[EUR][1000 genomes]
rs35735892	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35757708	0.85[EUR][1000 genomes]
rs3761699	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3811633	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3811634	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4264571	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4848229	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4848238	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4848241	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4848861	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4848874	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4848899	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4848971	0.88[CEU][hapmap]
rs4848973	0.85[CEU][hapmap]
rs4848979	0.81[JPT][hapmap]
rs4848980	0.88[CEU][hapmap];0.90[JPT][hapmap]
rs6541942	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6716528	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6722814	0.81[JPT][hapmap]
rs6731215	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6736093	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6743523	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6754526	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6755101	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71414616	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7349221	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7370418	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs74182850	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7578435	0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7595212	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7604403	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs870761	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs870763	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1801950	chr2:111899783-112746937	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	esv2757825	chr2:111899783-112746937	Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
3	esv2759083	chr2:111899783-112746937	Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
4	nsv874863	chr2:112591224-113157344	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
5	nsv874864	chr2:112617280-113104142	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
6	nsv874865	chr2:112623098-113049274	Enhancers Genic enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
7	nsv1013218	chr2:112645633-112908416	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
8	nsv998028	chr2:112649472-112734015	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	nsv582701	chr2:112649472-112740597	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
10	nsv526647	chr2:112651316-112738562	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
11	nsv582702	chr2:112651316-112738562	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:112658800-112665000	Enhancers	Liver	Liver
2	chr2:112660000-112665800	Enhancers	Left Ventricle	heart
3	chr2:112660200-112674400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr2:112660600-112664800	Enhancers	Duodenum Mucosa	Duodenum
5	chr2:112661000-112664800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
6	chr2:112661000-112665600	Enhancers	Adipose Nuclei	Adipose
7	chr2:112661600-112664800	Enhancers	Right Atrium	heart
8	chr2:112661600-112666400	Enhancers	Breast Myoepithelial Primary Cells	Breast
9	chr2:112661800-112665600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr2:112662200-112664800	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr2:112662200-112664800	Enhancers	Aorta	Aorta
12	chr2:112662200-112664800	Enhancers	Colon Smooth Muscle	Colon
13	chr2:112662200-112665400	Enhancers	HepG2	liver
14	chr2:112662400-112664800	Enhancers	Primary hematopoietic stem cells short term culture	blood
15	chr2:112662400-112664800	Enhancers	Brain Angular Gyrus	brain
16	chr2:112662400-112665400	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr2:112662600-112666000	Weak transcription	Gastric	stomach
18	chr2:112662800-112667400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr2:112662800-112675800	Weak transcription	Fetal Muscle Leg	muscle
20	chr2:112662800-112677000	Weak transcription	Spleen	Spleen
21	chr2:112663000-112677800	Weak transcription	Right Ventricle	heart
22	chr2:112663600-112664800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr2:112663600-112664800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr2:112663600-112664800	Enhancers	Skeletal Muscle Female	skeletal muscle
25	chr2:112663600-112665200	Enhancers	Primary monocytes fromperipheralblood	blood
26	chr2:112663600-112665200	Enhancers	Primary B cells from peripheral blood	blood
27	chr2:112663600-112665800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr2:112663600-112667600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr2:112663800-112665200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
30	chr2:112663800-112668400	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr2:112664000-112664800	Enhancers	Thymus	Thymus
32	chr2:112664000-112666000	Weak transcription	Fetal Heart	heart
33	chr2:112664200-112664800	Enhancers	HUES6 Cell Line	embryonic stem cell
34	chr2:112664200-112664800	Enhancers	Placenta	Placenta
35	chr2:112664200-112665600	Weak transcription	Brain Hippocampus Middle	brain
36	chr2:112664200-112667600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr2:112664200-112667600	Enhancers	Brain Anterior Caudate	brain
38	chr2:112664200-112667600	Enhancers	Fetal Kidney	kidney
39	chr2:112664200-112669000	Enhancers	Cortex derived primary cultured neurospheres	brain
40	chr2:112664200-112669000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr2:112664400-112664800	Enhancers	Primary T cells fromperipheralblood	blood
42	chr2:112664400-112664800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr2:112664400-112664800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr2:112664400-112664800	Enhancers	Brain Inferior Temporal Lobe	brain
45	chr2:112664400-112664800	Enhancers	Lung	lung
46	chr2:112664400-112664800	Enhancers	Pancreas	Pancrea
47	chr2:112664400-112665600	Weak transcription	Fetal Intestine Large	intestine
48	chr2:112664400-112665800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr2:112664400-112666000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr2:112664400-112666400	Enhancers	Brain Cingulate Gyrus	brain

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