Variant report

Variant	rs4845517
Chromosome Location	chr1:153003893-153003894
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr1:153003504-153003897	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
SPRR1B	TF binding region

Extended variants
information (count: 123 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:114)

rs_ID	r²[population]
rs1048296	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10788852	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10788853	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10788854	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10788855	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10788856	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10788857	0.82[EUR][1000 genomes]
rs10888523	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10888524	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10888525	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10888526	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11205164	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11205165	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11205166	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11205167	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11205172	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11205174	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11205175	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11205176	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11205177	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12029168	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12046286	0.84[AMR][1000 genomes]
rs12085426	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12195	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1334848	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1334849	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1334850	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1338181	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1415965	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1415966	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1415969	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1591736	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1750309	0.82[EUR][1000 genomes]
rs1890285	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1933381	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1933382	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2070963	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2070964	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2152993	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2152994	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2339492	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2651413	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2711	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2787629	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2879487	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs310105	0.82[EUR][1000 genomes]
rs310126	0.82[EUR][1000 genomes]
rs3120744	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3181787	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs368912	0.82[EUR][1000 genomes]
rs370162	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs372490	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs377768	0.81[EUR][1000 genomes]
rs3795381	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3795382	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3806221	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3806222	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3806223	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3820141	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs382653	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs394859	0.82[EUR][1000 genomes]
rs4041401	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs406350	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs407103	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs407448	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs409986	0.82[EUR][1000 genomes]
rs419721	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs423692	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs426360	0.82[EUR][1000 genomes]
rs435633	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs436621	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs441229	0.82[EUR][1000 genomes]
rs4452994	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs451939	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs454993	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4576617	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4610954	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs472076	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4845335	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4845336	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4845511	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4845512	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4845514	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4845515	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4845518	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4845519	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4845522	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs489323	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs512198	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs529077	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs532743	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs532773	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs546666	0.81[EUR][1000 genomes]
rs557553	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs558363	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs559236	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs561143	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs572821	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs574649	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61811862	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61811863	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs653332	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6587719	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6661791	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6686286	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs678960	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs679378	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs682472	0.82[EUR][1000 genomes]
rs682473	0.82[EUR][1000 genomes]
rs684305	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7417180	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs946095	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs946096	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9659389	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013433	chr1:152619305-153262215	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
2	nsv535170	chr1:152619305-153262215	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
3	nsv1001834	chr1:152648853-153279143	Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
4	nsv547899	chr1:152672005-153245082	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
5	nsv1010488	chr1:152901263-153670972	Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
6	nsv535171	chr1:152901263-153670972	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
7	nsv533877	chr1:152923645-153468131	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
8	nsv1003756	chr1:152944201-153044621	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	esv3416199	chr1:152957887-153005113	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:153003200-153008200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr1:153003400-153006200	Flanking Active TSS	NHEK	skin
3	chr1:153003600-153005400	Flanking Active TSS	HMEC	breast
4	chr1:153003600-153005600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr1:153003800-153004800	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr1:153003800-153005400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links