Variant report

Variant	rs1358981
Chromosome Location	chr6:36403394-36403395
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:36402240..36404481-chr6:36411422..36413820,2	MCF-7	breast:
2	chr6:36402372..36404513-chr6:36565857..36568827,2	K562	blood:
3	chr6:36393812..36400727-chr6:36401208..36405433,7	K562	blood:
4	chr6:36388047..36404187-chr6:36407090..36418492,47	K562	blood:
5	chr6:36391203..36392902-chr6:36402055..36405200,3	K562	blood:
6	chr6:36390904..36392727-chr6:36403071..36404600,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112078	Chromatin interaction
ENSG00000179165	Chromatin interaction

Extended variants
information (count: 141 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:140)

rs_ID	r²[population]
rs1003249	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10484615	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1061632	0.83[CEU][hapmap]
rs10947604	0.83[ASN][1000 genomes]
rs10947607	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10947608	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10947611	0.83[EUR][1000 genomes]
rs1137628	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11755264	0.83[CEU][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11756413	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11757842	0.83[CEU][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11759996	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1191	0.83[CEU][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12110954	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12181938	0.85[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12190062	0.83[CEU][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12209196	0.82[EUR][1000 genomes]
rs12211528	0.82[EUR][1000 genomes]
rs12660899	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12663882	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1535510	0.83[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16888552	0.83[CEU][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16888690	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1983781	0.83[CEU][hapmap];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1985423	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2007741	0.83[CEU][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2057351	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2071810	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2145751	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2146333	0.82[CEU][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2180929	0.83[CEU][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2187827	0.83[CEU][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2234069	0.84[ASN][1000 genomes]
rs2239807	0.83[CEU][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2239808	0.83[CEU][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2267925	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2267926	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2267927	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2267928	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2267929	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2267931	0.91[AMR][1000 genomes]
rs2267932	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2300064	0.83[CEU][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2894407	0.83[EUR][1000 genomes]
rs3752479	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3756911	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3756912	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3778019	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3798470	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3798472	0.93[CEU][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3798473	0.83[CEU][hapmap];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3798474	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3819760	0.83[CEU][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3822970	0.83[EUR][1000 genomes]
rs4598	0.83[CEU][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4713972	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4713973	0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs55829962	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56086408	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56763433	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57423505	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs57646047	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs58093537	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs58153398	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59104483	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs59955083	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60043926	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6457920	0.83[CEU][hapmap];0.83[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6457921	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6457922	0.81[AMR][1000 genomes]
rs6457923	0.83[CEU][hapmap];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6457928	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs6457929	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs67018593	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs67313027	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs67640018	0.81[EUR][1000 genomes]
rs6899372	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs6899421	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6899631	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6901513	0.83[ASN][1000 genomes]
rs6902076	0.83[EUR][1000 genomes]
rs6902473	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6905347	0.83[CEU][hapmap];0.82[YRI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6905686	0.83[CEU][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6911877	0.83[CEU][hapmap];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6912117	0.83[CEU][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6912982	0.83[CEU][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6913613	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs6913693	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6913714	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs6917489	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6917951	0.88[CEU][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6917981	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6920166	0.83[CEU][hapmap];0.83[EUR][1000 genomes]
rs6923337	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6926522	0.83[CEU][hapmap];0.85[YRI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6926796	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6927896	0.83[CEU][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6928087	0.88[CEU][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6930496	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6936942	0.83[CEU][hapmap];0.83[YRI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6939445	0.83[EUR][1000 genomes]
rs6941593	0.83[CEU][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73408850	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs73411055	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73413258	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs73413267	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7738604	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7742459	0.93[CEU][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7745411	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7749358	0.83[EUR][1000 genomes]
rs7752714	0.80[YRI][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7754363	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7763089	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7767377	0.90[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7769765	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7771028	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7772524	0.83[CEU][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7772800	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs933236	0.83[CEU][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9462185	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9462186	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9462190	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9462193	0.93[CEU][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9470267	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9470273	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9470280	0.83[CEU][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9470289	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9470291	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9470293	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9470294	0.83[CEU][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9470295	0.83[CEU][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9470296	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9470297	0.83[CEU][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9470300	0.83[CEU][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9470302	0.83[CEU][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9470304	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9654588	0.91[ASN][1000 genomes]
rs9767243	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9767778	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];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	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
rs1358981	KCTD20	cis	Skin Sun Exposed Lower leg	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36392000-36404200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr6:36399000-36410200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr6:36400400-36408400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr6:36400400-36409200	Weak transcription	Placenta	Placenta
5	chr6:36400600-36404200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr6:36400600-36404200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr6:36400600-36404200	Weak transcription	GM12878-XiMat	blood
8	chr6:36400600-36408800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr6:36400600-36408800	Weak transcription	HSMM	muscle
10	chr6:36400800-36403600	Weak transcription	NH-A	brain
11	chr6:36400800-36406000	Weak transcription	A549	lung
12	chr6:36400800-36409000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:36401000-36403400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr6:36401200-36404000	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr6:36403200-36405200	Enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links