Variant report

Variant	rs4682441
Chromosome Location	chr3:112565173-112565174
allele	G/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	GATA3	chr3:112564811-112565187	MCF-7	breast:	n/a	n/a

Variant related genes	Relation type
CD200R1L	TF binding region

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs1016348	1.00[CHB][hapmap];0.87[JPT][hapmap];0.83[ASN][1000 genomes]
rs10934190	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10934192	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10934193	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12497951	0.84[ASN][1000 genomes]
rs13326243	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1387023	0.83[CHB][hapmap]
rs1387024	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs1392786	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs1466872	0.83[ASN][1000 genomes]
rs1488193	0.89[CHB][hapmap]
rs1500879	0.92[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs1844084	0.94[CHB][hapmap]
rs1971986	0.97[ASN][1000 genomes]
rs2087284	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2101440	0.89[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs2171509	0.83[ASN][1000 genomes]
rs2399436	0.96[ASN][1000 genomes]
rs2399443	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4103791	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs4234417	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4682120	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4682125	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs4682440	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4682444	0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4682447	0.89[CHB][hapmap]
rs6438118	1.00[CHB][hapmap];0.87[JPT][hapmap];0.83[ASN][1000 genomes]
rs6438119	1.00[CHB][hapmap];0.87[JPT][hapmap];0.83[ASN][1000 genomes]
rs6438120	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs6438122	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs6766388	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6769091	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs6772799	0.83[ASN][1000 genomes]
rs6780406	0.90[CEU][hapmap]
rs6784838	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs6791158	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6791672	0.94[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs6808249	1.00[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs7355890	0.83[ASN][1000 genomes]
rs7611690	0.83[ASN][1000 genomes]
rs7615462	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs7615572	0.94[CHB][hapmap];0.86[JPT][hapmap]
rs7622812	1.00[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs7622814	1.00[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs7632218	0.97[AFR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7646849	1.00[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs7652504	0.83[ASN][1000 genomes]
rs7652536	0.89[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs9815606	0.83[ASN][1000 genomes]
rs9819079	0.81[ASN][1000 genomes]
rs9823363	1.00[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs9826308	1.00[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs9833991	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs9834353	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs9834840	0.84[ASN][1000 genomes]
rs9847365	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9854885	1.00[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs9864295	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs9865242	1.00[CHB][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs9868053	0.83[ASN][1000 genomes]
rs9868839	0.89[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs9870335	0.84[ASN][1000 genomes]
rs9870568	0.94[CHB][hapmap];0.85[JPT][hapmap];0.83[ASN][1000 genomes]
rs9871985	1.00[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs9875551	0.98[ASN][1000 genomes]
rs9877631	0.84[ASN][1000 genomes]
rs9883255	0.85[AFR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3329419	chr3:112236688-112620544	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv432477	chr3:112390310-112603310	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
4	nsv877343	chr3:112470586-112597706	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv3501334	chr3:112546820-112648766	Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	esv3501335	chr3:112546820-112648766	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112562800-112566400	Weak transcription	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links