Variant report

Variant	rs2373148
Chromosome Location	chr3:46071506-46071507
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	SPI1	chr3:46071436-46072125	GM12878	blood:	n/a	n/a
2	SPI1	chr3:46071408-46071761	GM12878	blood:	n/a	n/a
3	RUNX3	chr3:46071434-46071825	GM12878	blood:	n/a	n/a
4	SP1	chr3:46071480-46071808	GM12878	blood:	n/a	n/a
5	NFIC	chr3:46071291-46071960	GM12878	blood:	n/a	n/a
6	MYC	chr3:46071304-46071545	MCF10A-Er-Src	breast:	n/a	n/a
7	RUNX3	chr3:46071138-46071992	GM12878	blood:	n/a	n/a
8	CUX1	chr3:46071324-46071840	GM12878	blood:	n/a	n/a
9	SPI1	chr3:46071451-46071806	GM12891	blood:	n/a	n/a
10	IRF4	chr3:46071492-46071815	GM12878	blood:	n/a	n/a
11	BCL11A	chr3:46071476-46071833	GM12878	blood:	n/a	n/a
12	MXI1	chr3:46071414-46071570	GM12878	blood:	n/a	n/a
13	ZNF384	chr3:46071479-46071810	GM12878	blood:	n/a	n/a
14	EP300	chr3:46071494-46071744	GM12878	blood:	n/a	n/a
15	EP300	chr3:46071445-46071951	GM12878	blood:	n/a	n/a
16	EP300	chr3:46071474-46071864	GM12878	blood:	n/a	n/a
17	SPI1	chr3:46071496-46071786	GM12891	blood:	n/a	n/a

Variant related genes	Relation type
XCR1	TF binding region

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1388605	0.95[CEU][hapmap];1.00[JPT][hapmap]
rs1392288	0.84[CEU][hapmap]
rs1392293	0.91[EUR][1000 genomes]
rs1546076	0.95[CEU][hapmap];1.00[JPT][hapmap]
rs1809733	0.95[CEU][hapmap];1.00[JPT][hapmap]
rs2036293	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2133666	0.92[EUR][1000 genomes]
rs2371	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2373155	0.85[CEU][hapmap]
rs2888511	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4321566	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4490404	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4493468	0.92[EUR][1000 genomes]
rs4682801	0.95[CEU][hapmap]
rs4683158	0.95[CEU][hapmap]
rs4683171	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6441938	0.91[EUR][1000 genomes]
rs6441939	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6786959	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes]
rs6802312	0.95[CEU][hapmap]
rs6809223	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7610953	0.92[EUR][1000 genomes]
rs7622333	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[TSI][hapmap];0.92[EUR][1000 genomes]
rs7625348	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7638309	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7653682	0.95[CEU][hapmap]
rs974380	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs974381	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9811555	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9820016	0.95[CEU][hapmap];1.00[JPT][hapmap]
rs9869458	0.92[EUR][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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	esv2756987	chr3:46016464-46120400	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	esv2759145	chr3:46016464-46120400	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	esv1805205	chr3:46032847-46111081	Flanking Active TSS Active TSS Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46070600-46076400	Weak transcription	Right Atrium	heart
2	chr3:46070800-46072200	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr3:46070800-46072400	Enhancers	Primary B cells from peripheral blood	blood
4	chr3:46070800-46072400	Enhancers	GM12878-XiMat	blood
5	chr3:46071000-46072400	Enhancers	Monocytes-CD14+_RO01746	blood
6	chr3:46071400-46072400	Enhancers	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links