Variant report

Variant	rs10219205
Chromosome Location	chr11:10567602-10567603
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:10561382..10565193-chr11:10565326..10570748,6	K562	blood:
2	chr11:10561295..10562984-chr11:10566863..10568605,2	K562	blood:

Variant related genes	Relation type
ENSG00000177112	Chromatin interaction
ENSG00000110315	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10219352	0.97[ASN][1000 genomes]
rs10500726	0.82[CEU][hapmap]
rs1062912	0.90[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.92[ASN][1000 genomes]
rs1074375	0.82[CEU][hapmap]
rs1074377	0.82[CEU][hapmap]
rs10770123	0.82[CEU][hapmap];0.85[TSI][hapmap]
rs10770126	0.81[CEU][hapmap];0.90[CHB][hapmap];0.81[CHD][hapmap];0.90[JPT][hapmap];0.87[MEX][hapmap];0.81[TSI][hapmap]
rs10840438	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840440	0.90[CHB][hapmap];0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs10840441	0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10840443	0.85[JPT][hapmap]
rs10840446	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs11042875	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042876	0.90[CHB][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs11042877	0.90[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs11042879	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11042882	0.90[CHB][hapmap];0.85[CHD][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs11042883	0.85[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs11042895	0.86[CHB][hapmap];0.80[JPT][hapmap]
rs12288969	0.87[ASN][1000 genomes]
rs16907989	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1964537	0.90[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs1993817	0.82[CEU][hapmap]
rs1993818	0.82[CEU][hapmap];0.82[MEX][hapmap];0.84[TSI][hapmap]
rs1993819	0.82[CEU][hapmap];0.85[TSI][hapmap]
rs2278125	0.85[CHB][hapmap]
rs2288236	0.90[CHB][hapmap];0.85[CHD][hapmap];0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs3741033	0.85[JPT][hapmap]
rs3741034	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.83[GIH][hapmap];0.85[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4910153	0.82[CEU][hapmap];0.85[TSI][hapmap];0.80[EUR][1000 genomes]
rs4910162	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6484344	0.84[CEU][hapmap]
rs7115310	0.90[CHB][hapmap];0.85[CHD][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs7118551	0.92[ASN][1000 genomes]
rs7126245	0.81[CEU][hapmap];0.90[CHB][hapmap];0.81[CHD][hapmap];0.90[JPT][hapmap];0.87[MEX][hapmap];0.81[TSI][hapmap]
rs7358373	0.90[CHB][hapmap];0.91[CHD][hapmap];0.90[JPT][hapmap];0.92[ASN][1000 genomes]
rs746164	0.90[CHB][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs7941294	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7951653	0.85[CEU][hapmap]
rs918981	0.92[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	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10219205	RNF141	cis	parietal	SCAN
rs10219205	AMPD3	cis	cerebellum	SCAN
rs10219205	EIF3F	cis	cerebellum	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10566200-10572800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr11:10566600-10568400	Enhancers	Primary B cells from peripheral blood	blood
3	chr11:10566600-10570600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr11:10566800-10567800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr11:10567400-10568200	Enhancers	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links