Variant report

Variant	rs12079835
Chromosome Location	chr1:72081112-72081113
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10493487	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs10889922	0.83[ASW][hapmap];0.93[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11209805	0.92[CHB][hapmap];0.81[CHD][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs11209807	0.87[EUR][1000 genomes]
rs11209808	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs11209809	0.87[EUR][1000 genomes]
rs11209810	0.87[EUR][1000 genomes]
rs11209812	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs11209818	0.85[CHB][hapmap]
rs12021864	0.92[CHB][hapmap];0.85[ASN][1000 genomes]
rs12030511	0.85[CHB][hapmap];0.81[CHD][hapmap];0.83[ASN][1000 genomes]
rs12032545	0.87[ASN][1000 genomes]
rs12038728	0.92[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs12060036	0.87[EUR][1000 genomes]
rs12061421	1.00[CEU][hapmap]
rs12061960	0.87[EUR][1000 genomes]
rs12062322	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs12077327	1.00[CEU][hapmap]
rs1335003	1.00[CEU][hapmap]
rs17091539	1.00[CEU][hapmap]
rs17091550	1.00[CEU][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs17091556	0.87[EUR][1000 genomes]
rs17091559	0.87[EUR][1000 genomes]
rs1932179	0.87[EUR][1000 genomes]
rs1981072	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs1981073	0.87[EUR][1000 genomes]
rs4288546	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs55645049	0.87[EUR][1000 genomes]
rs61516147	0.83[ASN][1000 genomes]
rs6679512	0.83[ASN][1000 genomes]
rs74088522	0.87[EUR][1000 genomes]
rs74088530	0.87[EUR][1000 genomes]
rs74088531	0.87[EUR][1000 genomes]
rs74088533	0.87[EUR][1000 genomes]
rs7538331	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs7553260	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs870734	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs9943152	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949599	chr1:71655652-72327802	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv1007250	chr1:71998391-72350683	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv534992	chr1:71998391-72350683	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv948821	chr1:72049987-72477221	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1003446	chr1:72060680-72419918	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv461884	chr1:72077549-72238691	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv546476	chr1:72077549-72238691	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv461895	chr1:72079898-72206799	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	nsv546477	chr1:72079898-72206799	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:72072200-72085200	Weak transcription	Colon Smooth Muscle	Colon
2	chr1:72076000-72081800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr1:72076400-72081600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr1:72081000-72087000	Weak transcription	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links