Variant report

Variant	rs62253660
Chromosome Location	chr3:55916303-55916304
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs12108171	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12633538	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1458066	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17056053	0.82[ASN][1000 genomes]
rs17056061	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17056065	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17056081	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17056090	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17056093	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17056098	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1902861	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35046325	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs55673265	0.88[ASN][1000 genomes]
rs55675302	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55682897	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55724092	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55957219	0.88[ASN][1000 genomes]
rs55967115	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55971093	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56211981	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs57688760	0.88[ASN][1000 genomes]
rs58422259	0.88[ASN][1000 genomes]
rs59611401	0.88[ASN][1000 genomes]
rs62253661	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62253664	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62253666	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62253667	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62253668	0.86[EUR][1000 genomes]
rs62253669	0.86[EUR][1000 genomes]
rs62255821	0.88[ASN][1000 genomes]
rs62255831	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62255832	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62255835	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62256771	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62256772	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62256773	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62256774	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62256778	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6445755	1.00[ASN][1000 genomes]
rs6763408	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6766607	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6769408	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6790300	0.88[ASN][1000 genomes]
rs73073394	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73075332	0.83[EUR][1000 genomes]
rs73075334	0.83[EUR][1000 genomes]
rs733509	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7609626	0.88[ASN][1000 genomes]
rs7617166	0.88[ASN][1000 genomes]
rs7618265	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7631779	0.88[ASN][1000 genomes]
rs7631846	0.88[ASN][1000 genomes]
rs7636943	0.88[ASN][1000 genomes]
rs7638901	0.88[ASN][1000 genomes]
rs7639013	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7649504	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs897965	0.85[AMR][1000 genomes]
rs993594	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv876815	chr3:55895409-55979964	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:55893600-55923600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:55903800-55922000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:55913200-55916800	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr3:55913200-55916800	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr3:55913400-55916800	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr3:55913400-55919400	Weak transcription	Fetal Kidney	kidney
7	chr3:55914200-55918000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr3:55914200-55918600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr3:55914200-55919200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr3:55914600-55919000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr3:55914600-55919000	Weak transcription	NHLF	lung
12	chr3:55914800-55918000	Weak transcription	NHEK	skin
13	chr3:55914800-55918400	Weak transcription	Hela-S3	cervix
14	chr3:55914800-55918600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:55914800-55919200	Weak transcription	Fetal Lung	lung
16	chr3:55915400-55916800	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr3:55915400-55917600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
18	chr3:55915400-55918400	Weak transcription	HMEC	breast
19	chr3:55915400-55925800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr3:55915600-55916800	Enhancers	iPS-15b Cell Line	embryonic stem cell
21	chr3:55915800-55916400	Enhancers	HUES6 Cell Line	embryonic stem cell
22	chr3:55916000-55916400	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr3:55916000-55916400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr3:55916000-55917000	Enhancers	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links