Variant report

Variant	rs13062352
Chromosome Location	chr3:136464762-136464763
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:136462295..136467701-chr3:136468356..136473185,8	MCF-7	breast:
2	chr3:136460640..136463485-chr3:136464653..136466977,3	K562	blood:
3	chr3:136464546..136467728-chr3:136469677..136472541,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000118007	Chromatin interaction
ENSG00000261758	Chromatin interaction

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs1052620	1.00[ASN][1000 genomes]
rs12695649	1.00[ASN][1000 genomes]
rs13066401	1.00[ASN][1000 genomes]
rs13071220	0.81[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs13080786	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13092193	1.00[ASN][1000 genomes]
rs13096466	1.00[ASN][1000 genomes]
rs13100192	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13314357	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13326151	1.00[ASN][1000 genomes]
rs13433683	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13433688	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13434116	1.00[ASN][1000 genomes]
rs17365792	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1872239	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2176269	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28370972	1.00[ASN][1000 genomes]
rs28390205	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28472992	1.00[ASN][1000 genomes]
rs28489326	1.00[ASN][1000 genomes]
rs28641809	1.00[ASN][1000 genomes]
rs28750366	1.00[ASN][1000 genomes]
rs28811905	1.00[ASN][1000 genomes]
rs28877020	1.00[ASN][1000 genomes]
rs34564818	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34645606	1.00[ASN][1000 genomes]
rs34804893	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34969907	1.00[ASN][1000 genomes]
rs35096613	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35100027	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35198484	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35210994	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35422852	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35428413	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35880395	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35899944	1.00[ASN][1000 genomes]
rs36109616	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36177165	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4038586	1.00[ASN][1000 genomes]
rs4470449	1.00[ASN][1000 genomes]
rs66509730	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67145204	1.00[ASN][1000 genomes]
rs67382287	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767889	1.00[ASN][1000 genomes]
rs6771002	1.00[ASN][1000 genomes]
rs6773949	1.00[ASN][1000 genomes]
rs6774964	1.00[ASN][1000 genomes]
rs6806123	1.00[ASN][1000 genomes]
rs71336069	1.00[ASN][1000 genomes]
rs71336080	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73230043	1.00[ASN][1000 genomes]
rs73230099	1.00[ASN][1000 genomes]
rs73231903	1.00[ASN][1000 genomes]
rs7612425	1.00[ASN][1000 genomes]
rs9289513	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9809269	1.00[ASN][1000 genomes]
rs9809988	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9813376	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9813691	1.00[ASN][1000 genomes]
rs9819856	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9820717	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9828088	1.00[ASN][1000 genomes]
rs9828976	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9838884	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9840500	1.00[ASN][1000 genomes]
rs9845862	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9847427	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9850364	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9857833	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9857966	1.00[ASN][1000 genomes]
rs9858560	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9860879	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9865995	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9867325	1.00[ASN][1000 genomes]
rs9869630	1.00[ASN][1000 genomes]
rs9871184	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9873536	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9875770	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9878078	1.00[ASN][1000 genomes]
rs9879531	1.00[ASN][1000 genomes]
rs9881831	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9883189	1.00[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	nsv877529	chr3:136364511-136487559	ZNF genes & repeats Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136432400-136468200	Weak transcription	Aorta	Aorta
2	chr3:136448200-136467600	Weak transcription	HSMM	muscle
3	chr3:136448200-136467800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr3:136448200-136467800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr3:136448200-136467800	Weak transcription	HSMMtube	muscle
6	chr3:136448600-136467600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr3:136449000-136470000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr3:136450400-136467800	Weak transcription	Psoas Muscle	Psoas
9	chr3:136450600-136467800	Weak transcription	Primary B cells from cord blood	blood
10	chr3:136450800-136467800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr3:136450800-136467800	Weak transcription	Duodenum Mucosa	Duodenum
12	chr3:136450800-136467800	Weak transcription	Rectal Smooth Muscle	rectum
13	chr3:136450800-136469000	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr3:136451000-136467800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr3:136453200-136466000	Weak transcription	Placenta	Placenta
16	chr3:136453600-136467800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr3:136453800-136467600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:136454200-136465400	Weak transcription	Adipose Nuclei	Adipose
19	chr3:136454200-136465400	Weak transcription	Stomach Smooth Muscle	stomach
20	chr3:136454200-136467800	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr3:136454200-136469200	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr3:136454200-136470000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr3:136454400-136467800	Weak transcription	Liver	Liver
24	chr3:136454400-136467800	Weak transcription	Brain Hippocampus Middle	brain
25	chr3:136454400-136469200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr3:136454600-136467800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr3:136454800-136469200	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr3:136455000-136466000	Weak transcription	Spleen	Spleen
29	chr3:136455000-136467000	Weak transcription	Left Ventricle	heart
30	chr3:136455800-136467800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr3:136456000-136465400	Weak transcription	Primary T cells fromperipheralblood	blood
32	chr3:136456000-136466200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
33	chr3:136456000-136467800	Weak transcription	NH-A	brain
34	chr3:136456200-136467800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr3:136456400-136467000	Weak transcription	Lung	lung
36	chr3:136456400-136467400	Weak transcription	Right Ventricle	heart
37	chr3:136456400-136468000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr3:136456600-136467800	Weak transcription	Fetal Intestine Large	intestine
39	chr3:136457400-136470000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
40	chr3:136457600-136466200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr3:136458400-136470000	Weak transcription	Esophagus	oesophagus
42	chr3:136459800-136467800	Weak transcription	Fetal Kidney	kidney
43	chr3:136460200-136467800	Weak transcription	NHEK	skin
44	chr3:136460400-136468000	Weak transcription	Gastric	stomach
45	chr3:136460800-136467600	Weak transcription	K562	blood
46	chr3:136460800-136467800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr3:136461200-136467600	Weak transcription	Hela-S3	cervix
48	chr3:136461200-136467600	Weak transcription	Osteobl	bone
49	chr3:136461200-136467800	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr3:136461200-136467800	Weak transcription	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links