Variant report

Variant	rs58272882
Chromosome Location	chr5:118263155-118263156
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs17144674	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17144719	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17144749	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17144777	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17144807	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17144815	1.00[EUR][1000 genomes]
rs56253801	1.00[EUR][1000 genomes]
rs57269254	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57626866	1.00[EUR][1000 genomes]
rs57879671	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57935306	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58306431	1.00[EUR][1000 genomes]
rs58511548	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58532063	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58886471	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58907676	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59300139	0.87[AFR][1000 genomes]
rs59816467	1.00[EUR][1000 genomes]
rs59960294	1.00[EUR][1000 genomes]
rs59983556	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59989728	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60221161	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60372583	1.00[AMR][1000 genomes]
rs61128026	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61196104	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73236928	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73236931	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73236934	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73236952	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73236955	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73236956	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73236981	1.00[EUR][1000 genomes]
rs73239013	1.00[EUR][1000 genomes]
rs73239017	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73239018	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73239038	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73239043	1.00[EUR][1000 genomes]
rs73239050	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73239054	1.00[EUR][1000 genomes]
rs73239061	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73239070	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73239073	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73253504	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs865396	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882767	chr5:117931730-118385691	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:118225400-118300400	Weak transcription	Primary B cells from cord blood	blood
2	chr5:118227400-118270600	Weak transcription	Ovary	ovary
3	chr5:118233800-118289200	Weak transcription	Psoas Muscle	Psoas
4	chr5:118243600-118265000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr5:118244000-118279600	Weak transcription	Liver	Liver
6	chr5:118244000-118287400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr5:118245000-118272200	Weak transcription	Aorta	Aorta
8	chr5:118246600-118266800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr5:118250400-118289400	Weak transcription	Primary B cells from peripheral blood	blood
10	chr5:118252000-118279000	Weak transcription	Left Ventricle	heart
11	chr5:118253200-118280200	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr5:118253400-118279200	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr5:118254000-118279800	Weak transcription	Pancreas	Pancrea
14	chr5:118255000-118265400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr5:118255200-118265600	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr5:118256000-118277800	Weak transcription	Fetal Intestine Small	intestine
17	chr5:118256400-118266200	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr5:118257400-118285600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr5:118257600-118279800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr5:118258000-118265200	Weak transcription	Duodenum Mucosa	Duodenum
21	chr5:118258000-118280400	Weak transcription	Rectal Smooth Muscle	rectum
22	chr5:118258200-118269000	Weak transcription	Gastric	stomach
23	chr5:118259200-118265600	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr5:118259200-118265600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr5:118259200-118270800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr5:118259600-118286800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr5:118259600-118305000	Weak transcription	Stomach Smooth Muscle	stomach
28	chr5:118259800-118264800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
29	chr5:118259800-118265600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr5:118259800-118266200	Weak transcription	Fetal Muscle Leg	muscle
31	chr5:118260000-118266800	Weak transcription	Fetal Stomach	stomach
32	chr5:118260600-118289400	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr5:118261000-118267400	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr5:118261400-118264000	Weak transcription	Primary T helper cells PMA-I stimulated	--
35	chr5:118261600-118263400	Strong transcription	HUES6 Cell Line	embryonic stem cell
36	chr5:118261600-118264200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr5:118262000-118263600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr5:118262600-118282800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
39	chr5:118262800-118271000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr5:118263000-118306000	Weak transcription	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links