Variant report

Variant	rs665211
Chromosome Location	chr3:101600028-101600029
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	chr3:101566748..101570087-chr3:101596631..101600244,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000144802	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1081574	0.81[ASN][1000 genomes]
rs1081576	0.81[ASN][1000 genomes]
rs1088047	0.81[ASN][1000 genomes]
rs1091320	0.80[ASN][1000 genomes]
rs1091664	0.84[ASN][1000 genomes]
rs1378838	0.81[ASN][1000 genomes]
rs1672380	0.81[ASN][1000 genomes]
rs1672386	0.82[ASN][1000 genomes]
rs1707608	0.84[JPT][hapmap]
rs1707613	0.81[ASN][1000 genomes]
rs1707619	0.82[ASN][1000 genomes]
rs2860329	0.81[ASN][1000 genomes]
rs2925325	0.82[ASN][1000 genomes]
rs2925326	0.82[ASN][1000 genomes]
rs2926538	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2929922	0.92[CEU][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs617688	0.91[MEX][hapmap]
rs641432	0.92[CEU][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs650567	0.82[GIH][hapmap];0.91[MEX][hapmap];0.80[TSI][hapmap]
rs651907	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs654102	0.84[ASN][1000 genomes]
rs662792	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs675779	0.87[JPT][hapmap];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs694936	0.92[CEU][hapmap];0.95[MEX][hapmap];0.82[TSI][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs771573	0.84[ASN][1000 genomes]
rs771574	0.84[ASN][1000 genomes]
rs771575	0.84[ASN][1000 genomes]
rs796410	0.94[ASN][1000 genomes]
rs797776	0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv497784	chr3:101315009-102092989	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	nsv997407	chr3:101384031-101611391	Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
3	nsv536675	chr3:101384031-101611391	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
4	esv3351469	chr3:101511702-101866448	Weak transcription Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
5	nsv1010762	chr3:101584836-101803821	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:101590200-101600800	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr3:101597400-101607000	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr3:101598600-101603000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr3:101599600-101601000	Enhancers	Monocytes-CD14+_RO01746	blood
5	chr3:101600000-101600800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links