Variant report

Variant	rs11125981
Chromosome Location	chr2:63911761-63911762
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10183479	0.81[ASW][hapmap];0.82[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.91[YRI][hapmap]
rs10865344	1.00[YRI][hapmap]
rs11677338	0.80[AFR][1000 genomes]
rs11684093	0.89[ASN][1000 genomes]
rs11686956	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11695421	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12991311	0.92[YRI][hapmap]
rs13006124	0.92[YRI][hapmap];0.83[AFR][1000 genomes]
rs13025357	0.92[CHB][hapmap]
rs1446568	0.92[CHB][hapmap]
rs17619717	0.85[YRI][hapmap];0.83[AFR][1000 genomes]
rs17619753	0.91[ASW][hapmap];0.94[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.82[MEX][hapmap];0.89[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs33977056	0.92[CHB][hapmap]
rs35474183	0.88[AFR][1000 genomes]
rs4233930	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs4538187	0.81[ASW][hapmap];0.82[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[YRI][hapmap]
rs4671073	0.82[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]
rs6546029	0.81[ASW][hapmap];0.82[CEU][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap]
rs6546030	0.87[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap]
rs6546032	0.80[ASW][hapmap];0.82[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap]
rs6546035	0.82[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs67037366	0.83[ASN][1000 genomes]
rs6710230	0.92[YRI][hapmap]
rs6710763	0.82[CEU][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap]
rs6715992	0.82[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.91[YRI][hapmap]
rs6726257	0.92[YRI][hapmap]
rs6732746	0.81[ASW][hapmap];0.82[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap]
rs6742187	0.85[AFR][1000 genomes]
rs6755646	0.82[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.91[YRI][hapmap]
rs7590399	0.81[ASW][hapmap];0.82[CEU][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.91[YRI][hapmap]
rs7597935	0.89[LWK][hapmap];0.81[MKK][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834242	chr2:63891249-64045617	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv961781	chr2:63911442-63916913	Weak transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11125981	COMMD1	cis	parietal	SCAN
rs11125981	UGP2	cis	cerebellum	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:63908800-63923400	Weak transcription	Adipose Nuclei	Adipose
2	chr2:63909200-63925600	Weak transcription	Psoas Muscle	Psoas
3	chr2:63911600-63912200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links