Variant report

Variant	rs6674364
Chromosome Location	chr1:171728781-171728782
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:171727833..171729476-chr1:171748565..171750912,2	K562	blood:
2	chr1:171709554..171712819-chr1:171724332..171729197,5	K562	blood:
3	chr1:171725897..171728838-chr1:171750336..171751922,2	K562	blood:
4	chr1:171709658..171712904-chr1:171725619..171729545,3	MCF-7	breast:
5	chr1:171728708..171731158-chr1:171748251..171750478,2	MCF-7	breast:
6	chr1:171719691..171724963-chr1:171725919..171729117,5	K562	blood:
7	chr1:171723775..171729031-chr1:171729363..171735304,8	K562	blood:

Variant related genes	Relation type
ENSG00000010165	Chromatin interaction
ENSG00000236741	Chromatin interaction
ENSG00000117533	Chromatin interaction
ENSG00000232261	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1045456	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs10489252	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs10913683	0.98[EUR][1000 genomes]
rs10913684	0.98[EUR][1000 genomes]
rs12091786	0.94[CEU][hapmap];0.98[EUR][1000 genomes]
rs12565176	1.00[CEU][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12567851	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12730717	0.98[EUR][1000 genomes]
rs12742601	0.98[EUR][1000 genomes]
rs12750330	0.87[EUR][1000 genomes]
rs12753043	0.98[EUR][1000 genomes]
rs17596025	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17596081	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17649609	1.00[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17650310	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs17650340	0.98[EUR][1000 genomes]
rs17657363	0.90[EUR][1000 genomes]
rs1801898	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs2143369	0.98[EUR][1000 genomes]
rs2181216	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2223602	0.94[CEU][hapmap];0.98[EUR][1000 genomes]
rs2232807	0.97[EUR][1000 genomes]
rs2232813	0.98[EUR][1000 genomes]
rs2232819	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs2232824	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs2232825	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs2294718	1.00[CEU][hapmap]
rs236894	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs236897	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs236898	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs236899	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs236900	0.88[EUR][1000 genomes]
rs236907	1.00[CEU][hapmap]
rs34320898	0.98[EUR][1000 genomes]
rs34627492	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35249022	0.96[EUR][1000 genomes]
rs35400839	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35631282	0.98[EUR][1000 genomes]
rs35674909	0.98[EUR][1000 genomes]
rs35882887	0.98[EUR][1000 genomes]
rs35930163	0.98[EUR][1000 genomes]
rs36080557	0.98[EUR][1000 genomes]
rs3891278	0.98[EUR][1000 genomes]
rs55732843	0.90[EUR][1000 genomes]
rs56365362	0.98[EUR][1000 genomes]
rs56377810	0.98[EUR][1000 genomes]
rs61807979	0.98[EUR][1000 genomes]
rs6656852	0.98[EUR][1000 genomes]
rs6675708	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6681322	0.94[CEU][hapmap];0.98[EUR][1000 genomes]
rs6689125	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6695933	0.98[EUR][1000 genomes]
rs7522582	0.94[CEU][hapmap];0.98[EUR][1000 genomes]
rs7536142	0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3512995	chr1:171329123-171994470	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	esv3512997	chr1:171329123-171994470	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6674364	KIAA0859	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:171723600-171730200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr1:171724200-171731400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr1:171724400-171729600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr1:171727800-171730200	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links