Variant report

Variant	rs4406858
Chromosome Location	chr12:60606108-60606109
allele	C/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	CEBPB	chr12:60605993-60606288	Hela-S3	cervix:	n/a	chr12:60606132-60606143
2	CEBPB	chr12:60605959-60606420	K562	blood:	n/a	chr12:60606132-60606143
3	CEBPB	chr12:60605954-60606305	IMR90	lung:	n/a	chr12:60606132-60606143
4	CEBPB	chr12:60606000-60606252	H1-hESC	embryonic stem cell:	n/a	chr12:60606132-60606143
5	CEBPB	chr12:60605980-60606326	HepG2	liver:	n/a	chr12:60606132-60606143
6	CEBPB	chr12:60605962-60606307	A549	lung:	n/a	chr12:60606132-60606143

Variant related genes	Relation type
ENSG00000258184	TF binding region

Extended variants
information (count: 112 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs10747870	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10784027	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10784028	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10784029	0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs10784033	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10877398	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10877399	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10877401	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10877402	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10877403	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10877406	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10877412	0.82[EUR][1000 genomes]
rs10877413	0.83[EUR][1000 genomes]
rs10877414	0.82[EUR][1000 genomes]
rs11173338	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11173351	0.82[EUR][1000 genomes]
rs11173357	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11173359	0.84[EUR][1000 genomes]
rs11173361	0.85[EUR][1000 genomes]
rs11173365	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11173367	0.85[EUR][1000 genomes]
rs11173371	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11173387	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11173389	0.83[EUR][1000 genomes]
rs11173391	0.83[EUR][1000 genomes]
rs11173392	0.83[EUR][1000 genomes]
rs11173393	0.83[EUR][1000 genomes]
rs11173395	0.82[EUR][1000 genomes]
rs11173397	0.82[EUR][1000 genomes]
rs11173398	0.82[EUR][1000 genomes]
rs11561446	0.83[EUR][1000 genomes]
rs11561447	0.83[EUR][1000 genomes]
rs11836206	0.83[EUR][1000 genomes]
rs12226976	0.80[EUR][1000 genomes]
rs12817959	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12830074	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1304313	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1319775	0.83[EUR][1000 genomes]
rs1354469	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1389255	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1389256	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1493311	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1493318	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1504444	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1587821	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1910674	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1995515	0.84[EUR][1000 genomes]
rs2014074	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2134882	0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2172500	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2202365	0.82[EUR][1000 genomes]
rs2221407	0.82[EUR][1000 genomes]
rs2363600	0.83[EUR][1000 genomes]
rs35713358	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3847662	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3847663	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3907482	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3920119	0.83[EUR][1000 genomes]
rs4093759	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4143650	0.85[EUR][1000 genomes]
rs4254103	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4265627	0.85[EUR][1000 genomes]
rs4347425	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4366523	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4625509	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs4758855	0.86[AMR][1000 genomes]
rs4758858	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55661627	0.85[EUR][1000 genomes]
rs56240683	0.83[EUR][1000 genomes]
rs60691341	0.82[EUR][1000 genomes]
rs61923066	0.83[EUR][1000 genomes]
rs61923074	0.86[EUR][1000 genomes]
rs61923092	0.85[EUR][1000 genomes]
rs61923093	0.86[EUR][1000 genomes]
rs61923121	0.83[EUR][1000 genomes]
rs61923155	0.84[EUR][1000 genomes]
rs6581305	0.85[EUR][1000 genomes]
rs6581310	0.83[EUR][1000 genomes]
rs7131926	0.85[EUR][1000 genomes]
rs7134663	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7135031	0.82[ASN][1000 genomes]
rs7136435	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7136994	0.81[EUR][1000 genomes]
rs7138854	0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7295183	0.84[EUR][1000 genomes]
rs7297548	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7298315	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7300532	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7302607	0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7306226	0.81[EUR][1000 genomes]
rs7312225	0.87[EUR][1000 genomes]
rs7313364	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs735926	0.80[ASN][1000 genomes]
rs7952971	0.82[EUR][1000 genomes]
rs7953857	0.84[EUR][1000 genomes]
rs7957100	0.83[EUR][1000 genomes]
rs7957295	0.82[EUR][1000 genomes]
rs7960292	0.82[EUR][1000 genomes]
rs7960303	0.82[EUR][1000 genomes]
rs7960487	0.82[EUR][1000 genomes]
rs7961221	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7961816	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7967860	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7973156	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7977065	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs924836	0.82[EUR][1000 genomes]
rs958543	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs959645	0.81[EUR][1000 genomes]
rs992478	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428591	chr12:60446360-60631044	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv899137	chr12:60568891-60797083	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1054287	chr12:60601870-60861866	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:60599600-60645400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr12:60606000-60606800	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell

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