Variant report

Variant	rs13185177
Chromosome Location	chr5:179965300-179965301
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10464103	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10516144	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10516145	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10903256	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10903257	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10903261	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1105972	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11249716	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11249717	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11249719	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11249720	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11249722	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11249723	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11249725	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11249726	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11249728	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11249729	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11249731	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11249732	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11738129	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11738199	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11740950	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11742093	0.86[ASN][1000 genomes]
rs11743298	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11748611	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11748880	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11750412	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11949971	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11956294	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12054820	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12187407	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13154251	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13164926	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13165676	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13166941	0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs13168301	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13168976	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13169807	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13174261	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13175241	0.86[ASN][1000 genomes]
rs13181218	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13182715	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs13185444	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13190607	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13361838	0.81[ASN][1000 genomes]
rs1478360	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1994912	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2131811	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2387283	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2387287	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2387288	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2617262	0.86[ASN][1000 genomes]
rs34294053	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35710030	0.86[AMR][1000 genomes]
rs4002641	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62405523	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62405524	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62405545	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6601127	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6601129	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs67607816	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6864038	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6874985	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6879011	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6888064	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6894846	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6897365	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7704287	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7705358	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7705421	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7705521	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7722020	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7724243	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7726226	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7727679	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs937919	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023914	chr5:179649883-180040672	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv537983	chr5:179649883-180040672	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1030697	chr5:179710469-180686563	ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	184 gene(s)	inside rSNPs	diseases
4	nsv1026417	chr5:179721376-180291360	Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
5	nsv1031836	chr5:179742033-180676122	Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	177 gene(s)	inside rSNPs	diseases
6	nsv537984	chr5:179742033-180676122	Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	177 gene(s)	inside rSNPs	diseases
7	nsv949199	chr5:179743553-180696889	Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	182 gene(s)	inside rSNPs	diseases
8	nsv1023537	chr5:179791679-179982822	Transcr. at gene 5' and 3' Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
9	nsv537985	chr5:179791679-179982822	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
10	nsv830564	chr5:179867394-180010096	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
11	esv1810959	chr5:179945112-179997861	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
12	esv3430080	chr5:179963746-179967044	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Enhancers	TF binding region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:179950200-179975200	Weak transcription	Psoas Muscle	Psoas
2	chr5:179950200-179984400	Weak transcription	NHDF-Ad	bronchial
3	chr5:179950200-179992000	Weak transcription	Right Ventricle	heart
4	chr5:179950400-179992400	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr5:179950600-180004000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr5:179951000-179991800	Weak transcription	Small Intestine	intestine
7	chr5:179951600-179967000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr5:179952400-179969000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr5:179952800-179967200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr5:179952800-179975400	Weak transcription	Stomach Mucosa	stomach
11	chr5:179953400-179975200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
12	chr5:179953600-179977000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr5:179953800-179975400	Weak transcription	Fetal Heart	heart
14	chr5:179955600-179977600	Weak transcription	Colonic Mucosa	Colon
15	chr5:179957400-179976800	Weak transcription	Osteobl	bone
16	chr5:179957600-179965800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr5:179957600-179967200	Weak transcription	A549	lung
18	chr5:179957600-179967200	Weak transcription	NH-A	brain
19	chr5:179958200-179971000	Weak transcription	HUVEC	blood vessel
20	chr5:179959000-179978200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr5:179959600-179975200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
22	chr5:179959600-179975400	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr5:179959800-179968800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr5:179959800-179978600	Weak transcription	Brain Angular Gyrus	brain
25	chr5:179959800-179991600	Weak transcription	HMEC	breast
26	chr5:179960000-179967200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr5:179960000-179977400	Weak transcription	Brain Cingulate Gyrus	brain
28	chr5:179960000-180000600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr5:179960200-179971600	Weak transcription	Brain Substantia Nigra	brain
30	chr5:179960200-179976800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
31	chr5:179960200-179977000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr5:179960200-179977000	Weak transcription	Brain Anterior Caudate	brain
33	chr5:179960200-179977600	Weak transcription	NHEK	skin
34	chr5:179960200-179982200	Weak transcription	HSMMtube	muscle
35	chr5:179960200-179991600	Weak transcription	Esophagus	oesophagus
36	chr5:179960200-179998200	Weak transcription	Spleen	Spleen
37	chr5:179960400-179991600	Weak transcription	Gastric	stomach
38	chr5:179961000-179977600	Weak transcription	Rectal Smooth Muscle	rectum
39	chr5:179961200-179976800	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr5:179961200-179977800	Weak transcription	Aorta	Aorta
41	chr5:179961200-179992600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr5:179961400-179967000	Weak transcription	Hela-S3	cervix
43	chr5:179961400-179968800	Weak transcription	Rectal Mucosa Donor 29	rectum
44	chr5:179961400-179974800	Weak transcription	Pancreas	Pancrea
45	chr5:179961400-179977000	Weak transcription	Lung	lung
46	chr5:179961400-179977000	Weak transcription	Stomach Smooth Muscle	stomach
47	chr5:179961400-179991800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr5:179961600-179967200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr5:179961600-179967400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr5:179961600-179967400	Weak transcription	Fetal Kidney	kidney

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links