Variant report

Variant	rs7643630
Chromosome Location	chr3:155573659-155573660
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:2 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:155569981-155574595	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr3:155573549-155573689	MCF-7	breast:	n/a	n/a

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:155572250..155574131-chr3:155576263..155579798,3	MCF-7	breast:
2	chr3:155447543..155449055-chr3:155572391..155574272,2	MCF-7	breast:
3	chr3:155460891..155464537-chr3:155570941..155574143,3	MCF-7	breast:
4	chr3:155568718..155574348-chr3:155586235..155593210,15	K562	blood:
5	chr3:155569630..155574596-chr3:155585012..155589734,13	MCF-7	breast:
6	chr3:155572221..155574189-chr3:155702815..155705514,3	K562	blood:
7	chr3:155542604..155544846-chr3:155572519..155574378,2	MCF-7	breast:
8	chr3:155522731..155527439-chr3:155568712..155573851,7	MCF-7	breast:
9	chr3:155522613..155525345-chr3:155572139..155575204,3	K562	blood:
10	chr3:155532511..155534755-chr3:155572747..155574633,2	MCF-7	breast:

No data

Variant related genes	Relation type
SLC33A1	TF binding region
ENSG00000163655	Chromatin interaction
ENSG00000174928	Chromatin interaction
ENSG00000240489	Chromatin interaction
ENSG00000214919	Chromatin interaction
ENSG00000114805	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10804773	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10804774	0.82[ASN][1000 genomes]
rs10936020	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1131925	0.99[ASN][1000 genomes]
rs11714133	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13059611	0.98[ASN][1000 genomes]
rs13091683	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13096499	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2054878	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2063903	0.83[ASN][1000 genomes]
rs34337666	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35321137	0.82[ASN][1000 genomes]
rs35472369	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs358703	0.86[AMR][1000 genomes]
rs3772115	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3772116	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3821365	0.86[ASN][1000 genomes]
rs4680219	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4680223	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs55662848	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6441028	0.86[ASN][1000 genomes]
rs66509404	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6763830	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6799267	0.85[ASN][1000 genomes]
rs6809229	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7619976	0.89[ASN][1000 genomes]
rs7633168	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7651038	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7652005	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[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	nsv877680	chr3:155438022-155723064	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	esv2753744	chr3:155487298-155707298	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv877681	chr3:155535670-155654017	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155573000-155577600	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr3:155573200-155574200	Weak transcription	Fetal Thymus	thymus
3	chr3:155573200-155574400	Weak transcription	HepG2	liver
4	chr3:155573200-155575600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr3:155573200-155576800	Weak transcription	Placenta	Placenta
6	chr3:155573200-155577400	Weak transcription	Pancreas	Pancrea
7	chr3:155573200-155577400	Weak transcription	K562	blood
8	chr3:155573200-155579600	Weak transcription	Dnd41	blood
9	chr3:155573200-155579800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr3:155573400-155575600	Weak transcription	GM12878-XiMat	blood
11	chr3:155573400-155577400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr3:155573400-155577400	Weak transcription	Liver	Liver
13	chr3:155573400-155577400	Weak transcription	Hela-S3	cervix
14	chr3:155573400-155577600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr3:155573400-155577600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr3:155573400-155579600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr3:155573400-155579600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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