Variant report

Variant	rs1444643
Chromosome Location	chr12:20565870-20565871
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10505865	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10732533	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10732534	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10734701	0.82[EUR][1000 genomes]
rs10743370	0.94[ASN][1000 genomes]
rs10743372	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10743373	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10743374	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10770649	0.83[ASN][1000 genomes]
rs10770650	0.89[ASN][1000 genomes]
rs10770651	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10770652	0.87[ASN][1000 genomes]
rs10770653	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10770654	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10770655	0.82[EUR][1000 genomes]
rs10770656	0.84[ASN][1000 genomes]
rs10841501	0.94[ASN][1000 genomes]
rs10841509	0.84[ASN][1000 genomes]
rs10841510	0.87[ASN][1000 genomes]
rs10841512	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10841513	0.87[ASN][1000 genomes]
rs10841515	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10841516	0.87[ASN][1000 genomes]
rs11045203	0.83[ASN][1000 genomes]
rs11045206	0.87[ASN][1000 genomes]
rs11045207	0.87[ASN][1000 genomes]
rs11045211	0.86[ASN][1000 genomes]
rs11045218	0.87[ASN][1000 genomes]
rs11045220	0.87[ASN][1000 genomes]
rs11045221	0.87[ASN][1000 genomes]
rs11045222	0.86[ASN][1000 genomes]
rs11045223	0.89[ASN][1000 genomes]
rs11045224	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11045225	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11045226	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11045227	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11045228	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11045230	0.87[ASN][1000 genomes]
rs12297116	0.89[ASN][1000 genomes]
rs12370745	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12370763	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12372457	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1348583	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1444628	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1444629	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1444630	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1444634	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1444635	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1444641	0.98[ASN][1000 genomes]
rs1444644	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1444645	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1444646	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16922851	0.83[ASN][1000 genomes]
rs1838447	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1838448	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4762955	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5014033	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs5014034	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs5014035	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs5014036	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs5014037	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs5014038	0.83[EUR][1000 genomes]
rs5014039	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs5014040	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60593141	0.80[ASN][1000 genomes]
rs60977432	0.87[ASN][1000 genomes]
rs6487083	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6487084	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6487085	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6487086	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7136586	0.89[ASN][1000 genomes]
rs71450706	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7310385	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7314448	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7954501	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7957567	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7967538	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs935258	0.91[ASN][1000 genomes]
rs978349	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9805045	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][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	nsv1048067	chr12:20363755-20874845	Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv541408	chr12:20363755-20874845	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv1046870	chr12:20509914-20711535	Active TSS Genic enhancers Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases
4	nsv541409	chr12:20509914-20711535	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases
5	nsv1042315	chr12:20531641-20629866	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:20542600-20566200	Weak transcription	Aorta	Aorta
2	chr12:20550400-20568200	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr12:20553200-20571200	Weak transcription	Psoas Muscle	Psoas
4	chr12:20556400-20573200	Weak transcription	Rectal Smooth Muscle	rectum
5	chr12:20556600-20582400	Weak transcription	Osteobl	bone
6	chr12:20558200-20568800	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr12:20558400-20566400	Weak transcription	Right Ventricle	heart
8	chr12:20558600-20566200	Weak transcription	Left Ventricle	heart
9	chr12:20558600-20588000	Weak transcription	HUVEC	blood vessel
10	chr12:20559800-20577800	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr12:20562800-20573400	Weak transcription	Fetal Kidney	kidney
12	chr12:20563400-20566000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr12:20563400-20566200	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr12:20563400-20566400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr12:20563400-20566600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr12:20563400-20566800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr12:20563400-20568000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr12:20563400-20568000	Weak transcription	Adipose Nuclei	Adipose
19	chr12:20563400-20568000	Weak transcription	NHDF-Ad	bronchial
20	chr12:20563400-20570400	Weak transcription	Fetal Intestine Large	intestine
21	chr12:20563400-20573000	Weak transcription	Fetal Intestine Small	intestine
22	chr12:20563600-20566000	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr12:20563600-20566200	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr12:20563600-20566600	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr12:20564000-20568400	Weak transcription	Right Atrium	heart
26	chr12:20564800-20566200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr12:20564800-20566600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr12:20564800-20567400	Weak transcription	Primary hematopoietic stem cells	blood
29	chr12:20564800-20573800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr12:20565200-20570800	Strong transcription	Hela-S3	cervix
31	chr12:20565600-20566600	Enhancers	Colon Smooth Muscle	Colon
32	chr12:20565600-20567200	Enhancers	iPS-15b Cell Line	embryonic stem cell
33	chr12:20565600-20567600	Weak transcription	Fetal Stomach	stomach
34	chr12:20565800-20567000	Enhancers	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links