Variant report

Variant	rs789738
Chromosome Location	chr12:64536009-64536010
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10459258	1.00[AMR][1000 genomes]
rs10459259	1.00[AMR][1000 genomes]
rs10735920	1.00[AMR][1000 genomes]
rs10735921	1.00[AMR][1000 genomes]
rs10735922	1.00[AMR][1000 genomes]
rs10878133	1.00[AMR][1000 genomes]
rs10878145	1.00[AMR][1000 genomes]
rs11175219	1.00[ASW][hapmap]
rs1162970	1.00[AMR][1000 genomes]
rs11835078	1.00[AMR][1000 genomes]
rs1436361	1.00[AMR][1000 genomes]
rs1469862	1.00[AMR][1000 genomes]
rs1657051	1.00[AMR][1000 genomes]
rs1708200	1.00[AMR][1000 genomes]
rs17099949	1.00[ASW][hapmap]
rs17711166	1.00[ASW][hapmap]
rs1865796	1.00[AMR][1000 genomes]
rs1898221	1.00[AMR][1000 genomes]
rs2082951	1.00[AMR][1000 genomes]
rs2335390	1.00[AMR][1000 genomes]
rs2453509	1.00[AMR][1000 genomes]
rs2575290	1.00[AMR][1000 genomes]
rs2575294	1.00[AMR][1000 genomes]
rs35744300	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4237925	1.00[AMR][1000 genomes]
rs4522269	1.00[AMR][1000 genomes]
rs4572232	1.00[AMR][1000 genomes]
rs4763153	1.00[AMR][1000 genomes]
rs4763156	1.00[AMR][1000 genomes]
rs6421211	1.00[AMR][1000 genomes]
rs6581542	1.00[AMR][1000 genomes]
rs696658	1.00[AMR][1000 genomes]
rs696659	1.00[AMR][1000 genomes]
rs699629	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs699630	1.00[AMR][1000 genomes]
rs699631	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs699632	1.00[AMR][1000 genomes]
rs699635	1.00[AMR][1000 genomes]
rs699636	1.00[AMR][1000 genomes]
rs699637	1.00[AMR][1000 genomes]
rs699638	1.00[AMR][1000 genomes]
rs7488560	1.00[AMR][1000 genomes]
rs789723	1.00[AMR][1000 genomes]
rs789725	1.00[YRI][hapmap]
rs789726	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs789727	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs789728	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs789730	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs789742	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs789747	1.00[AMR][1000 genomes]
rs790013	1.00[AMR][1000 genomes]
rs790014	1.00[AMR][1000 genomes]
rs790017	1.00[AMR][1000 genomes]
rs7955105	1.00[AMR][1000 genomes]
rs7976524	1.00[AMR][1000 genomes]
rs809322	1.00[AMR][1000 genomes]
rs813156	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3351487	chr12:64420364-64763950	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
2	esv3509287	chr12:64526217-64736995	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription 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	27 gene(s)	inside rSNPs	diseases
3	esv3509288	chr12:64526217-64736995	ZNF genes & repeats Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	esv3336339	chr12:64533135-64536433	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:64498400-64538400	Weak transcription	Small Intestine	intestine
2	chr12:64511200-64539400	Weak transcription	HepG2	liver
3	chr12:64522200-64541200	Weak transcription	Colonic Mucosa	Colon
4	chr12:64522400-64541200	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr12:64522800-64540800	Weak transcription	Fetal Kidney	kidney
6	chr12:64524200-64536200	Weak transcription	NHEK	skin
7	chr12:64524400-64541200	Weak transcription	Gastric	stomach
8	chr12:64527800-64536200	Weak transcription	Liver	Liver
9	chr12:64527800-64536200	Weak transcription	Duodenum Mucosa	Duodenum
10	chr12:64527800-64537000	Weak transcription	Right Ventricle	heart
11	chr12:64528000-64536400	Weak transcription	Fetal Brain Male	brain
12	chr12:64528000-64538400	Weak transcription	Fetal Heart	heart
13	chr12:64528000-64540800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr12:64528000-64541200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr12:64528000-64541400	Weak transcription	Colon Smooth Muscle	Colon
16	chr12:64528200-64536200	Weak transcription	Lung	lung
17	chr12:64528600-64540400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr12:64528800-64536200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr12:64529000-64536200	Weak transcription	Spleen	Spleen
20	chr12:64529400-64536600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr12:64529800-64536200	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr12:64530000-64536200	Weak transcription	Adipose Nuclei	Adipose
23	chr12:64531600-64554400	Weak transcription	NH-A	brain
24	chr12:64533800-64541200	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr12:64534600-64538000	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr12:64535400-64537600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr12:64535400-64537600	Strong transcription	Fetal Intestine Small	intestine
28	chr12:64535400-64537600	Strong transcription	Pancreas	Pancrea
29	chr12:64535400-64537800	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr12:64535400-64538400	Strong transcription	Cortex derived primary cultured neurospheres	brain
31	chr12:64535400-64539600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr12:64535400-64539600	Strong transcription	Fetal Stomach	stomach
33	chr12:64535400-64540000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr12:64535400-64540400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
35	chr12:64535400-64541400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr12:64535400-64542400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr12:64535600-64536400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr12:64535600-64536400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr12:64535600-64537000	Strong transcription	Brain Substantia Nigra	brain
40	chr12:64535600-64537000	Genic enhancers	Esophagus	oesophagus
41	chr12:64535600-64537400	Strong transcription	Brain Anterior Caudate	brain
42	chr12:64535600-64537400	Strong transcription	Rectal Mucosa Donor 29	rectum
43	chr12:64535600-64537600	Strong transcription	Left Ventricle	heart
44	chr12:64535600-64537800	Strong transcription	Fetal Lung	lung
45	chr12:64535600-64537800	Strong transcription	Ovary	ovary
46	chr12:64535600-64537800	Strong transcription	Sigmoid Colon	Sigmoid Colon
47	chr12:64535600-64538000	Strong transcription	Muscle Satellite Cultured Cells	--
48	chr12:64535600-64538000	Strong transcription	Fetal Muscle Trunk	muscle
49	chr12:64535600-64538000	Strong transcription	HMEC	breast
50	chr12:64535600-64538200	Strong transcription	Duodenum Smooth Muscle	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links