Variant report

Variant	rs1001449
Chromosome Location	chr12:10265095-10265096
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr12:10264997-10265122	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
CLEC1A	TF binding region

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10845047	0.85[CHB][hapmap]
rs11053572	1.00[CHB][hapmap];0.87[JPT][hapmap];0.94[ASN][1000 genomes]
rs11053573	1.00[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs11053574	1.00[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs11053582	0.95[ASN][1000 genomes]
rs11053587	0.95[ASN][1000 genomes]
rs11053588	0.87[JPT][hapmap];0.95[ASN][1000 genomes]
rs11053590	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11053592	0.85[CHB][hapmap]
rs11053597	0.85[CHB][hapmap]
rs11053603	0.85[CHB][hapmap]
rs11053607	1.00[CEU][hapmap]
rs11053613	1.00[CHB][hapmap]
rs11053615	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs11053617	0.85[CHB][hapmap]
rs11053623	1.00[CEU][hapmap]
rs11053628	1.00[CEU][hapmap]
rs11533515	0.95[ASN][1000 genomes]
rs11561164	0.94[ASN][1000 genomes]
rs11832093	0.95[ASN][1000 genomes]
rs11838264	0.85[CHB][hapmap];0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs12227725	1.00[CEU][hapmap]
rs12301411	0.94[ASN][1000 genomes]
rs1532087	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16910075	1.00[CHB][hapmap];0.87[JPT][hapmap];0.89[ASN][1000 genomes]
rs2291158	0.94[ASN][1000 genomes]
rs2401608	0.92[ASN][1000 genomes]
rs55738961	0.95[ASN][1000 genomes]
rs55767325	0.95[ASN][1000 genomes]
rs59801652	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61441743	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7309870	1.00[CEU][hapmap]
rs7979266	1.00[CHB][hapmap];0.87[JPT][hapmap];0.89[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	nsv898757	chr12:10229281-10614641	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:10264200-10265200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
2	chr12:10264200-10265400	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
3	chr12:10264200-10275600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr12:10264600-10281000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr12:10264800-10265400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr12:10264800-10266400	Enhancers	Hela-S3	cervix
7	chr12:10264800-10268000	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr12:10265000-10265400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links