Variant report

Variant	rs6454597
Chromosome Location	chr6:87984117-87984118
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:87982117..87985714-chr6:87986469..87990458,4	K562	blood:
2	chr6:87984045..87985714-chr6:87988958..87991422,2	K562	blood:

Extended variants
information (count: 160 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:157)

rs_ID	r²[population]
rs107689	0.80[ASN][1000 genomes]
rs107690	0.80[ASN][1000 genomes]
rs1080595	0.82[ASN][1000 genomes]
rs1080596	0.82[ASN][1000 genomes]
rs1201409	0.83[ASN][1000 genomes]
rs12176253	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12190280	0.83[ASN][1000 genomes]
rs12664578	0.82[ASN][1000 genomes]
rs173333	0.84[ASN][1000 genomes]
rs1753154	0.95[ASN][1000 genomes]
rs183599	0.83[ASN][1000 genomes]
rs1925689	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1925695	0.84[ASN][1000 genomes]
rs1980790	0.82[ASN][1000 genomes]
rs1980791	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1980792	0.82[ASN][1000 genomes]
rs2031518	0.82[ASN][1000 genomes]
rs2147917	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2147918	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2147919	0.83[ASN][1000 genomes]
rs2147920	0.84[ASN][1000 genomes]
rs2147921	0.84[ASN][1000 genomes]
rs2182181	0.84[ASN][1000 genomes]
rs2240459	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2240460	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs242267	0.83[ASN][1000 genomes]
rs242270	0.83[ASN][1000 genomes]
rs242278	0.84[ASN][1000 genomes]
rs242279	0.84[ASN][1000 genomes]
rs242280	0.84[ASN][1000 genomes]
rs242281	0.84[ASN][1000 genomes]
rs242283	0.93[ASN][1000 genomes]
rs2474349	0.95[ASN][1000 genomes]
rs2985039	0.87[ASN][1000 genomes]
rs35788380	0.82[EUR][1000 genomes]
rs369674	0.86[ASN][1000 genomes]
rs3734187	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs373646	0.83[ASN][1000 genomes]
rs376633	0.86[ASN][1000 genomes]
rs3812130	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3812132	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs381782	0.87[ASN][1000 genomes]
rs3846773	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3846774	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3846775	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3846776	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3857483	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3857484	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3857485	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3857488	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3903920	0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs3904088	0.86[ASN][1000 genomes]
rs4099964	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4110984	0.84[ASN][1000 genomes]
rs4110985	0.84[ASN][1000 genomes]
rs445434	0.87[ASN][1000 genomes]
rs446851	0.84[ASN][1000 genomes]
rs447077	0.84[ASN][1000 genomes]
rs448580	0.87[ASN][1000 genomes]
rs451089	0.87[ASN][1000 genomes]
rs451465	0.86[ASN][1000 genomes]
rs451829	0.87[ASN][1000 genomes]
rs4574603	0.84[EUR][1000 genomes]
rs4591818	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4605853	0.82[ASN][1000 genomes]
rs4706289	0.82[ASN][1000 genomes]
rs4707346	0.84[ASN][1000 genomes]
rs4707347	0.85[ASN][1000 genomes]
rs4707348	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4707351	0.86[ASN][1000 genomes]
rs4707352	0.86[ASN][1000 genomes]
rs4707356	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4707357	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4707358	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs586771	0.83[ASN][1000 genomes]
rs62439492	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6454589	0.85[EUR][1000 genomes]
rs6454591	0.82[ASN][1000 genomes]
rs6454592	0.80[ASN][1000 genomes]
rs6454593	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6454594	0.86[ASN][1000 genomes]
rs6454595	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6454596	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6454598	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6454599	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6454600	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6899394	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6904310	0.82[ASN][1000 genomes]
rs6907805	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6909021	0.80[ASN][1000 genomes]
rs6909200	0.82[ASN][1000 genomes]
rs6910991	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6913721	0.84[ASN][1000 genomes]
rs6913932	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6914193	0.85[ASN][1000 genomes]
rs6916994	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6917432	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6921007	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6921504	0.83[ASN][1000 genomes]
rs6925648	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6926563	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6926831	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6926838	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6927748	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6932678	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6933046	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6934603	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6937874	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6940544	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7453986	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7739034	0.82[ASN][1000 genomes]
rs7739726	0.82[ASN][1000 genomes]
rs7742478	0.82[ASN][1000 genomes]
rs7742710	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7748191	0.82[ASN][1000 genomes]
rs7748879	0.83[ASN][1000 genomes]
rs7752485	0.85[ASN][1000 genomes]
rs7752882	0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7753030	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7755244	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7755883	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7758618	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7763365	0.82[ASN][1000 genomes]
rs7766324	0.82[ASN][1000 genomes]
rs7767449	0.82[ASN][1000 genomes]
rs7768575	0.82[ASN][1000 genomes]
rs7774080	0.85[EUR][1000 genomes]
rs7774603	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7776407	0.82[ASN][1000 genomes]
rs910563	0.83[ASN][1000 genomes]
rs9294374	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9344690	0.84[ASN][1000 genomes]
rs9344691	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9344693	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9344695	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9344696	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9344697	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9351114	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9351124	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9353455	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9353463	0.82[ASN][1000 genomes]
rs9353464	0.86[ASN][1000 genomes]
rs9353465	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9353466	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9353468	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9353473	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9359734	0.84[EUR][1000 genomes]
rs9359743	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9362408	0.82[ASN][1000 genomes]
rs9362411	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9362413	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9362415	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9362417	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9450634	0.84[ASN][1000 genomes]
rs9450647	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9450650	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9450652	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][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	esv2758067	chr6:87817883-87992957	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2759453	chr6:87817883-87992957	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	esv2752763	chr6:87981595-88001064	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6454597	C6orf163	Cis_1M	lymphoblastoid	RTeQTL
rs6454597	SLC35A1	Cis_1M	lymphoblastoid	RTeQTL
rs6454597	C6orf162	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:87966400-87989200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:87967800-87989000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr6:87968200-87991200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr6:87968400-87984400	Weak transcription	NHDF-Ad	bronchial
5	chr6:87968600-87984200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr6:87970000-87984600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr6:87970200-87984600	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr6:87970400-87984400	Weak transcription	NH-A	brain
9	chr6:87970600-87984200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:87970600-87988800	Weak transcription	Fetal Thymus	thymus
11	chr6:87970600-87994800	Weak transcription	Fetal Brain Female	brain
12	chr6:87971200-87985800	Weak transcription	Brain Germinal Matrix	brain
13	chr6:87975000-87984200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr6:87983400-87984800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr6:87983800-87984400	Enhancers	Primary neutrophils fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links