Variant report

Variant	rs6670253
Chromosome Location	chr1:169773730-169773731
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:169452217..169454597-chr1:169772651..169775174,2	K562	blood:
2	chr1:169773501..169777762-chr1:169777936..169781823,4	K562	blood:
3	chr1:169766093..169768334-chr1:169772109..169775699,3	K562	blood:
4	chr1:169764079..169768334-chr1:169771934..169775856,6	K562	blood:

Variant related genes	Relation type
ENSG00000000460	Chromatin interaction
ENSG00000171806	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10159425	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10489170	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10489177	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10753796	0.82[ASN][1000 genomes]
rs10800477	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10800482	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10919260	0.95[EUR][1000 genomes]
rs12049325	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12128754	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12135656	0.91[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs12135826	0.95[EUR][1000 genomes]
rs12138675	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12401338	0.81[EUR][1000 genomes]
rs12760433	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2143121	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2272916	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35275808	0.80[EUR][1000 genomes]
rs6427223	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6658548	0.95[EUR][1000 genomes]
rs6679646	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6688806	0.95[EUR][1000 genomes]
rs7533194	0.81[EUR][1000 genomes]
rs7552710	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs882595	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9787237	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][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	esv3451367	chr1:169630075-169976964	Strong transcription Flanking Active TSS Genic enhancers Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169764600-169782400	Weak transcription	Pancreas	Pancrea
2	chr1:169764800-169793200	Weak transcription	Aorta	Aorta
3	chr1:169764800-169793200	Weak transcription	Brain Hippocampus Middle	brain
4	chr1:169764800-169793400	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr1:169764800-169795200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr1:169764800-169796200	Weak transcription	Spleen	Spleen
7	chr1:169764800-169818200	Weak transcription	Esophagus	oesophagus
8	chr1:169764800-169818200	Weak transcription	Lung	lung
9	chr1:169764800-169823600	Weak transcription	Gastric	stomach
10	chr1:169765000-169776000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr1:169765000-169786000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr1:169765000-169793200	Weak transcription	Fetal Brain Male	brain
13	chr1:169765000-169808000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr1:169765000-169821800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr1:169765200-169774000	Weak transcription	Fetal Intestine Large	intestine
16	chr1:169765200-169774200	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr1:169765200-169774200	Weak transcription	Left Ventricle	heart
18	chr1:169765200-169774400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr1:169765200-169774400	Weak transcription	HSMM	muscle
20	chr1:169765200-169776600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr1:169765200-169779600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr1:169765200-169781200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr1:169765200-169781600	Weak transcription	Brain Substantia Nigra	brain
24	chr1:169765200-169783200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr1:169765200-169793200	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr1:169765200-169793200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr1:169765200-169793400	Weak transcription	Fetal Kidney	kidney
28	chr1:169765200-169797400	Weak transcription	HSMMtube	muscle
29	chr1:169765200-169802000	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr1:169765200-169807800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr1:169765200-169808000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr1:169765200-169809000	Weak transcription	Primary T helper cells fromperipheralblood	blood
33	chr1:169765200-169814800	Weak transcription	Brain Anterior Caudate	brain
34	chr1:169765200-169815200	Weak transcription	Rectal Smooth Muscle	rectum
35	chr1:169765200-169818800	Weak transcription	Brain Angular Gyrus	brain
36	chr1:169765200-169820600	Weak transcription	Psoas Muscle	Psoas
37	chr1:169765200-169823400	Weak transcription	Right Ventricle	heart
38	chr1:169765400-169774400	Weak transcription	Fetal Brain Female	brain
39	chr1:169765400-169788200	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr1:169765400-169796800	Weak transcription	Colon Smooth Muscle	Colon
41	chr1:169765400-169798400	Weak transcription	Brain Germinal Matrix	brain
42	chr1:169765400-169798400	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr1:169765400-169808000	Weak transcription	Fetal Heart	heart
44	chr1:169765400-169822600	Weak transcription	Colonic Mucosa	Colon
45	chr1:169765600-169774800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr1:169765600-169783800	Weak transcription	Fetal Intestine Small	intestine
47	chr1:169765600-169808000	Weak transcription	Small Intestine	intestine
48	chr1:169765600-169818200	Weak transcription	NHLF	lung
49	chr1:169765800-169774200	Weak transcription	Primary T cells from cord blood	blood
50	chr1:169765800-169793200	Weak transcription	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links