Variant report

Variant	rs3187236
Chromosome Location	chr9:79002061-79002062
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:78994805..78996335-chr9:79000595..79002259,2	MCF-7	breast:
2	chr9:78992647..78994850-chr9:78999374..79002879,3	K562	blood:
3	chr9:78991796..78994850-chr9:78999374..79004024,5	K562	blood:

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10116800	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10118954	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10119732	0.85[ASN][1000 genomes]
rs10125012	0.90[ASN][1000 genomes]
rs10125667	0.90[ASN][1000 genomes]
rs10781358	0.90[ASN][1000 genomes]
rs10781359	0.85[ASN][1000 genomes]
rs10781360	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10869770	0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs10869774	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11144870	0.90[ASN][1000 genomes]
rs11144875	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11144878	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11144881	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11144887	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11144894	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11144897	0.85[ASN][1000 genomes]
rs1129399	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11548954	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11791951	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11793613	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11794019	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12156473	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12375735	0.86[AMR][1000 genomes]
rs12377856	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12377878	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12380522	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1324213	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1951910	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2377640	0.86[AMR][1000 genomes]
rs4571791	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55740812	0.85[ASN][1000 genomes]
rs57480680	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58136435	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59424752	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61334567	0.86[AMR][1000 genomes]
rs62564441	0.80[ASN][1000 genomes]
rs62564442	0.80[ASN][1000 genomes]
rs62567918	0.85[ASN][1000 genomes]
rs62567919	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62568690	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62568692	0.90[ASN][1000 genomes]
rs6560513	0.86[AMR][1000 genomes]
rs6560515	0.86[AMR][1000 genomes]
rs6560516	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7023191	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7025942	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7026067	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7029439	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7035385	0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7037345	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7038009	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7038056	0.80[ASN][1000 genomes]
rs7040138	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7041690	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7047489	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7049245	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7851616	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7852884	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7853410	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7859327	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7875575	0.82[AMR][1000 genomes];0.90[ASN][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	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv893478	chr9:78933874-79101006	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv893479	chr9:78971253-79275226	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:78986600-79008400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr9:78987600-79007800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr9:78988200-79002600	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr9:78988200-79003200	Weak transcription	HSMMtube	muscle
5	chr9:78988200-79008400	Weak transcription	Brain Substantia Nigra	brain
6	chr9:78988200-79008400	Weak transcription	Fetal Heart	heart
7	chr9:78988400-79002200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr9:78988600-79002400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr9:78988600-79007800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr9:78988600-79008200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr9:78988800-79006000	Weak transcription	Brain Angular Gyrus	brain
12	chr9:78988800-79007200	Weak transcription	Brain Hippocampus Middle	brain
13	chr9:78988800-79008400	Weak transcription	Brain Cingulate Gyrus	brain
14	chr9:78990000-79005400	Weak transcription	Small Intestine	intestine
15	chr9:78990200-79007800	Weak transcription	Fetal Brain Male	brain
16	chr9:78990200-79008400	Weak transcription	Right Ventricle	heart
17	chr9:78990400-79002600	Weak transcription	Esophagus	oesophagus
18	chr9:78990400-79008200	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr9:78990400-79008400	Weak transcription	Fetal Kidney	kidney
20	chr9:78990600-79002400	Weak transcription	Fetal Intestine Small	intestine
21	chr9:78990600-79003000	Weak transcription	Colon Smooth Muscle	Colon
22	chr9:78990600-79005600	Weak transcription	K562	blood
23	chr9:78990600-79008400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
24	chr9:78990600-79008400	Weak transcription	Fetal Lung	lung
25	chr9:78990600-79008400	Weak transcription	Rectal Smooth Muscle	rectum
26	chr9:78990800-79008400	Weak transcription	NHLF	lung
27	chr9:78991000-79002400	Weak transcription	Fetal Stomach	stomach
28	chr9:78992200-79008600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr9:78994200-79005200	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr9:78995200-79003200	Weak transcription	Hela-S3	cervix
31	chr9:78995200-79007600	Weak transcription	Gastric	stomach
32	chr9:78995200-79007600	Weak transcription	HMEC	breast
33	chr9:78995200-79007600	Weak transcription	NHEK	skin
34	chr9:78995200-79008400	Weak transcription	Stomach Mucosa	stomach
35	chr9:78995200-79008600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr9:78996000-79008400	Weak transcription	H1 Cell Line	embryonic stem cell
37	chr9:78996400-79002600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr9:78997000-79007600	Weak transcription	Lung	lung
39	chr9:78997600-79003000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
40	chr9:78997600-79005800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
41	chr9:78997600-79008400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr9:78997800-79003600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
43	chr9:78997800-79004200	Strong transcription	Liver	Liver
44	chr9:78997800-79004200	Strong transcription	Fetal Thymus	thymus
45	chr9:78997800-79004400	Strong transcription	Primary B cells from cord blood	blood
46	chr9:78997800-79004400	Strong transcription	Monocytes-CD14+_RO01746	blood
47	chr9:78997800-79008400	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr9:78998000-79003800	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr9:78998000-79004400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr9:78998200-79002400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links