Variant report

Variant	rs29773
Chromosome Location	chr5:97970474-97970475
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs152956	0.85[ASN][1000 genomes]
rs152957	0.85[ASN][1000 genomes]
rs152980	0.94[EUR][1000 genomes]
rs152981	0.98[EUR][1000 genomes]
rs152982	0.99[EUR][1000 genomes]
rs152983	0.98[EUR][1000 genomes]
rs152986	0.98[EUR][1000 genomes]
rs152987	0.98[EUR][1000 genomes]
rs152990	0.99[EUR][1000 genomes]
rs171528	0.85[ASN][1000 genomes]
rs193500	0.84[ASN][1000 genomes]
rs251533	0.83[ASN][1000 genomes]
rs251535	0.83[ASN][1000 genomes]
rs25741	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs25742	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs25743	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs25744	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs27029	0.84[ASN][1000 genomes]
rs27030	0.83[ASN][1000 genomes]
rs27031	0.94[CHB][hapmap];0.88[JPT][hapmap];0.82[LWK][hapmap];0.93[MKK][hapmap]
rs27738	0.87[ASN][1000 genomes]
rs27786	0.83[ASN][1000 genomes]
rs27870	0.84[ASN][1000 genomes]
rs27971	0.84[ASN][1000 genomes]
rs29661	0.83[ASN][1000 genomes]
rs29670	0.83[ASN][1000 genomes]
rs29671	0.99[EUR][1000 genomes]
rs29733	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs29734	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs29735	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs29736	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs29770	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs29772	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3099443	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs316508	0.93[CEU][hapmap];0.90[GIH][hapmap];0.82[JPT][hapmap]
rs36759	0.83[ASN][1000 genomes]
rs36760	0.83[ASN][1000 genomes]
rs36761	0.83[ASN][1000 genomes]
rs36762	0.83[ASN][1000 genomes]
rs36763	0.81[ASN][1000 genomes]
rs3860804	0.94[CHB][hapmap]
rs40263	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs467763	0.83[ASN][1000 genomes]
rs468674	0.94[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs469191	0.84[ASN][1000 genomes]
rs622487	0.83[ASN][1000 genomes]
rs6893541	0.94[CHB][hapmap]

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	nsv1016611	chr5:97873846-98035559	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv537816	chr5:97873846-98035559	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv1029509	chr5:97888644-98040172	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv882413	chr5:97918829-98022320	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	esv1832089	chr5:97934125-97976039	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:97967400-97975000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr5:97967800-97970600	Weak transcription	NHLF	lung
3	chr5:97967800-97971200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr5:97968000-97971200	Weak transcription	HSMMtube	muscle
5	chr5:97968200-97970800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr5:97968200-97971200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr5:97968200-97971400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr5:97968400-97971000	Weak transcription	HSMM	muscle
9	chr5:97969200-97970800	Weak transcription	NHDF-Ad	bronchial
10	chr5:97969800-97972000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr5:97970000-97972000	Enhancers	Muscle Satellite Cultured Cells	--
12	chr5:97970400-97970600	Enhancers	Osteobl	bone
13	chr5:97970400-97972000	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr5:97970400-97972000	Enhancers	Fetal Intestine Large	intestine

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