Variant report

Variant	rs9470273
Chromosome Location	chr6:36393410-36393411
allele	A/T
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:36388375..36397373-chr6:36559893..36568556,25	K562	blood:
2	chr6:36389876..36393968-chr6:36394401..36398329,5	MCF-7	breast:
3	chr6:36391946..36393446-chr6:36395564..36398109,2	MCF-7	breast:
4	chr6:36389800..36393846-chr6:36407559..36413586,10	MCF-7	breast:
5	chr6:36388047..36404187-chr6:36407090..36418492,47	K562	blood:
6	chr6:36392379..36394477-chr6:36445111..36447901,2	K562	blood:
7	chr6:36389826..36395258-chr6:36409228..36414565,11	MCF-7	breast:
8	chr6:36084210..36086558-chr6:36391180..36393773,2	K562	blood:
9	chr6:36392101..36393943-chr6:36560976..36562570,2	MCF-7	breast:
10	chr6:36388539..36397962-chr6:36560062..36566089,23	K562	blood:

No data

Variant related genes	Relation type
ENSG00000112078	Chromatin interaction
ENSG00000112081	Chromatin interaction
ENSG00000179165	Chromatin interaction

Extended variants
information (count: 139 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:138)

rs_ID	r²[population]
rs1003249	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10484615	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10947604	0.84[ASN][1000 genomes]
rs10947607	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10947608	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10947611	0.82[EUR][1000 genomes]
rs1137628	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11755264	0.87[EUR][1000 genomes]
rs11756413	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11757842	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11759996	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1191	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12110954	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12181938	0.97[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12190062	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12209196	0.82[EUR][1000 genomes]
rs12211528	0.81[EUR][1000 genomes]
rs12660899	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12663882	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1358981	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1535510	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16888552	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16888690	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1983781	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1985423	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2007741	0.85[EUR][1000 genomes]
rs2057351	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2071810	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2145751	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2146333	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2180929	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2187827	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2234069	0.85[ASN][1000 genomes]
rs2239807	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2239808	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2267925	0.83[EUR][1000 genomes]
rs2267926	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2267927	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2267928	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2267929	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2267931	0.85[AMR][1000 genomes]
rs2267932	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2300064	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2894407	0.82[EUR][1000 genomes]
rs3752479	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3756911	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3756912	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3778019	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3798470	0.83[EUR][1000 genomes]
rs3798472	0.83[EUR][1000 genomes]
rs3798473	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3798474	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3819760	0.83[EUR][1000 genomes]
rs3822970	0.82[EUR][1000 genomes]
rs4598	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4713972	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs4713973	0.98[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs55829962	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56086408	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56763433	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57423505	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs57646047	0.82[EUR][1000 genomes]
rs58093537	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58153398	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs59104483	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59955083	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60043926	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6457920	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6457921	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6457923	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6457928	0.83[EUR][1000 genomes]
rs6457929	0.83[EUR][1000 genomes]
rs67018593	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs67313027	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs67640018	0.81[EUR][1000 genomes]
rs6899372	0.83[EUR][1000 genomes]
rs6899421	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6899631	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6901513	0.84[ASN][1000 genomes]
rs6902076	0.82[EUR][1000 genomes]
rs6902473	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6905347	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6905686	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6911877	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6912117	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6912982	0.83[EUR][1000 genomes]
rs6913613	0.83[EUR][1000 genomes]
rs6913693	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6913714	0.83[EUR][1000 genomes]
rs6917489	0.92[ASN][1000 genomes]
rs6917951	0.83[EUR][1000 genomes]
rs6917981	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6920166	0.83[EUR][1000 genomes]
rs6923337	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6926522	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6926796	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6927896	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6928087	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6930496	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6936942	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6939445	0.82[EUR][1000 genomes]
rs6941593	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73408850	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73411055	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73413258	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73413267	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7738604	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7742459	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7745411	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7749358	0.83[EUR][1000 genomes]
rs7752714	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7754363	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7763089	0.82[EUR][1000 genomes]
rs7767377	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7769765	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7771028	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7772524	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7772800	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs933236	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9462185	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9462186	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9462190	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9462193	0.83[EUR][1000 genomes]
rs9470267	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9470280	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9470289	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9470291	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9470293	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9470294	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9470295	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9470296	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9470297	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9470300	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9470302	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9470304	0.83[EUR][1000 genomes]
rs9654588	0.91[ASN][1000 genomes]
rs9767243	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9767778	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[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	nsv885806	chr6:36349890-36621178	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	103 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9470273	KCTD20	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36391800-36395400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:36391800-36395400	Weak transcription	HSMM	muscle
3	chr6:36391800-36395600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:36391800-36395600	Weak transcription	HSMMtube	muscle
5	chr6:36391800-36397600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr6:36392000-36393600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr6:36392000-36393600	Weak transcription	HMEC	breast
8	chr6:36392000-36394200	Weak transcription	K562	blood
9	chr6:36392000-36394400	Weak transcription	Hela-S3	cervix
10	chr6:36392000-36395200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr6:36392000-36395200	Weak transcription	Colon Smooth Muscle	Colon
12	chr6:36392000-36395600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr6:36392000-36395600	Weak transcription	A549	lung
14	chr6:36392000-36398800	Weak transcription	Osteobl	bone
15	chr6:36392000-36399200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr6:36392000-36400000	Weak transcription	Fetal Heart	heart
17	chr6:36392000-36404200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr6:36392400-36394000	Weak transcription	HepG2	liver
19	chr6:36392400-36396800	Weak transcription	Placenta	Placenta
20	chr6:36392600-36393600	Weak transcription	NHEK	skin
21	chr6:36392800-36393600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr6:36393200-36394200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links