Variant report

Variant	rs17163836
Chromosome Location	chr1:223531506-223531507
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:223530700..223533144-chr1:223535218..223537707,3	MCF-7	breast:
2	chr1:223531318..223534020-chr1:223565340..223568095,2	MCF-7	breast:
3	chr1:223528933..223533041-chr1:223533611..223537910,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178395	Chromatin interaction
ENSG00000143502	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10907375	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11261268	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11261269	0.88[ASN][1000 genomes]
rs11579995	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12064476	0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12074609	0.81[ASN][1000 genomes]
rs12074782	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12078619	0.87[ASN][1000 genomes]
rs12082133	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs12087387	0.86[ASN][1000 genomes]
rs12094897	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12405882	0.88[ASN][1000 genomes]
rs1400964	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1547789	0.84[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs1621030	0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs17162005	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17163834	0.81[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs1914612	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2282399	0.94[EUR][1000 genomes]
rs2298063	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2353204	0.88[ASN][1000 genomes]
rs28788929	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28897212	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34482638	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs35059272	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs35345617	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35727959	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35736338	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35996176	0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs41460051	0.84[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs4661241	0.94[EUR][1000 genomes]
rs59584296	0.88[ASN][1000 genomes]
rs61838203	0.87[ASN][1000 genomes]
rs61838204	0.87[ASN][1000 genomes]
rs61838211	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs61838232	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs61838233	0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs61838244	0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs61838245	0.92[ASN][1000 genomes]
rs6604707	0.94[EUR][1000 genomes]
rs6661314	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6677044	1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6679661	0.95[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6682552	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6689850	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6700523	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6701453	0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs862216	0.87[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	nsv1010798	chr1:223498145-223538989	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:223514400-223535800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr1:223526600-223534000	Weak transcription	Primary T cells from cord blood	blood
3	chr1:223528000-223535000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr1:223528000-223536400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:223530000-223532000	Weak transcription	NHEK	skin
6	chr1:223530200-223532200	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr1:223530600-223532200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr1:223530600-223533600	Weak transcription	Esophagus	oesophagus
9	chr1:223531200-223536400	Weak transcription	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links