Variant report

Variant	rs12633103
Chromosome Location	chr3:161034788-161034789
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:19)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:19 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:161030291..161037720-chr3:161038093..161046558,15	MCF-7	breast:
2	chr3:161033236..161036164-chr3:161124055..161126623,3	MCF-7	breast:
3	chr3:161026332..161029255-chr3:161034425..161036502,2	MCF-7	breast:
4	chr3:61852002..61854331-chr3:161033145..161035721,2	MCF-7	breast:
5	chr3:161031627..161035949-chr3:161055362..161059558,6	MCF-7	breast:
6	chr3:160987464..160989480-chr3:161032587..161035559,2	MCF-7	breast:
7	chr3:160998590..161004098-chr3:161031167..161035957,5	MCF-7	breast:
8	chr3:160991443..160993916-chr3:161034592..161038621,3	MCF-7	breast:
9	chr3:161030909..161038608-chr3:161038848..161046580,20	MCF-7	breast:
10	chr3:161021008..161023752-chr3:161033340..161034847,2	MCF-7	breast:
11	chr3:161032948..161035717-chr3:161058882..161060875,3	MCF-7	breast:
12	chr3:161006401..161012112-chr3:161031973..161037314,13	MCF-7	breast:
13	chr3:160980180..160982518-chr3:161034107..161036039,2	MCF-7	breast:
14	chr3:161025819..161030681-chr3:161030815..161036788,8	MCF-7	breast:
15	chr3:161034414..161036485-chr3:161127790..161130788,3	MCF-7	breast:
16	chr3:161023015..161026193-chr3:161034536..161038815,6	MCF-7	breast:
17	chr3:160991428..160993713-chr3:161032397..161034859,2	MCF-7	breast:
18	chr3:161026928..161036306-chr3:161081784..161094254,31	MCF-7	breast:
19	chr3:160995569..160997087-chr3:161032964..161034982,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000240138	Chromatin interaction
ENSG00000196542	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs11539155	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12108169	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12374001	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12629152	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12629929	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12630038	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12631467	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12632346	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12636434	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12636573	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12636590	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1450530	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16832237	0.85[EUR][1000 genomes]
rs16834031	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1904204	0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28384383	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs28853731	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4132373	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55949838	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56174161	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56741879	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs56890199	0.90[ASN][1000 genomes]
rs57441646	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59827519	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60228180	0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs60277631	0.83[AMR][1000 genomes]
rs60801542	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61193379	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs61388164	0.94[AMR][1000 genomes]
rs61578814	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61596736	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6800515	0.95[EUR][1000 genomes]
rs73162584	0.85[EUR][1000 genomes]
rs73162595	0.85[EUR][1000 genomes]
rs73162599	0.85[EUR][1000 genomes]
rs73875453	0.94[AMR][1000 genomes]
rs73875455	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs73875456	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73875458	0.84[AMR][1000 genomes]
rs73875460	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73875464	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73875472	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73875473	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73875482	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs73875492	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs73875500	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73875502	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73878303	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73878304	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73878305	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7652447	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv829770	chr3:160989573-161069223	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv4091	chr3:161018540-161063875	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv533237	chr3:161019834-161804660	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	91 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161032400-161034800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr3:161032600-161034800	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr3:161032600-161035000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:161032600-161035000	Enhancers	Hela-S3	cervix
5	chr3:161032600-161035000	Enhancers	NHEK	skin
6	chr3:161032600-161035200	Enhancers	HUVEC	blood vessel
7	chr3:161032800-161034800	Enhancers	HMEC	breast
8	chr3:161032800-161035000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr3:161033000-161035000	Enhancers	Stomach Mucosa	stomach
10	chr3:161033400-161034800	Enhancers	Rectal Mucosa Donor 31	rectum
11	chr3:161033600-161035000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr3:161034000-161035000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:161034400-161034800	Enhancers	NHDF-Ad	bronchial
14	chr3:161034600-161034800	Enhancers	Primary T helper cells PMA-I stimulated	--
15	chr3:161034600-161035000	Enhancers	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links