Variant report

Variant	rs10829261
Chromosome Location	chr10:27775288-27775289
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:27773891..27776810-chr10:27782060..27784167,2	MCF-7	breast:
2	chr10:27764841..27767820-chr10:27775141..27776833,2	K562	blood:

Extended variants
information (count: 69 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10082387	0.90[ASN][1000 genomes]
rs10128112	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10508724	0.84[CHB][hapmap];0.83[CHD][hapmap];0.85[JPT][hapmap]
rs10764695	0.90[ASN][1000 genomes]
rs10764696	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10764697	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10764699	0.89[CHB][hapmap];0.85[JPT][hapmap];0.86[ASN][1000 genomes]
rs11015807	0.87[ASN][1000 genomes]
rs11015810	0.87[ASN][1000 genomes]
rs11015812	0.88[ASN][1000 genomes]
rs11015815	0.92[ASN][1000 genomes]
rs11015816	0.91[ASN][1000 genomes]
rs11015817	0.91[ASN][1000 genomes]
rs11015823	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11015826	0.89[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs11015832	0.84[CHB][hapmap];0.85[JPT][hapmap]
rs11015840	0.84[CHB][hapmap];0.85[JPT][hapmap]
rs11015856	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs11015858	0.84[CHB][hapmap];0.83[CHD][hapmap];0.85[JPT][hapmap]
rs11813831	0.91[EUR][1000 genomes]
rs11814433	0.90[EUR][1000 genomes]
rs12218420	0.91[ASN][1000 genomes]
rs12220463	0.84[CHB][hapmap];0.86[CHD][hapmap];0.85[JPT][hapmap]
rs12263006	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12415979	0.92[CEU][hapmap];0.88[EUR][1000 genomes]
rs12569737	0.84[ASN][1000 genomes]
rs12571836	0.84[CHB][hapmap];0.83[CHD][hapmap];0.85[JPT][hapmap]
rs12571985	0.82[ASN][1000 genomes]
rs12573111	0.88[CHB][hapmap];0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs12772577	0.90[EUR][1000 genomes]
rs12777582	0.91[EUR][1000 genomes]
rs12778569	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs17749397	0.90[EUR][1000 genomes]
rs17756134	0.84[CHB][hapmap];0.86[CHD][hapmap];0.85[JPT][hapmap]
rs1886402	0.90[ASN][1000 genomes]
rs2242356	0.84[CHB][hapmap];0.83[CHD][hapmap];0.85[JPT][hapmap]
rs2368231	0.91[EUR][1000 genomes]
rs2642274	0.93[CEU][hapmap];0.91[TSI][hapmap];0.84[EUR][1000 genomes]
rs2992007	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs34978206	0.90[EUR][1000 genomes]
rs35224308	0.89[EUR][1000 genomes]
rs35590474	0.91[EUR][1000 genomes]
rs35599449	0.90[EUR][1000 genomes]
rs4237384	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4345873	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4514312	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4634991	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4749249	0.90[EUR][1000 genomes]
rs594549	0.91[EUR][1000 genomes]
rs61226328	0.92[ASN][1000 genomes]
rs61844844	0.91[EUR][1000 genomes]
rs61844847	0.89[EUR][1000 genomes]
rs625433	0.89[EUR][1000 genomes]
rs661882	0.91[EUR][1000 genomes]
rs7090220	0.90[EUR][1000 genomes]
rs717287	0.91[EUR][1000 genomes]
rs72629756	0.87[ASN][1000 genomes]
rs72629757	0.87[ASN][1000 genomes]
rs72629758	0.91[ASN][1000 genomes]
rs72629759	0.85[ASN][1000 genomes]
rs72629760	0.85[ASN][1000 genomes]
rs7475332	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9732977	0.89[EUR][1000 genomes]
rs9804355	1.00[CEU][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes]
rs9971075	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv8614	chr10:27504487-27828406	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv550241	chr10:27569521-28025771	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv1045257	chr10:27572440-27926946	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv1053952	chr10:27659365-27915029	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10829261	MYO3A	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27770200-27775600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr10:27771600-27779800	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr10:27772600-27777600	Weak transcription	Primary neutrophils fromperipheralblood	blood
4	chr10:27772800-27775400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr10:27773000-27775400	Enhancers	NHEK	skin
6	chr10:27773000-27775600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr10:27773800-27778800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr10:27774000-27775400	Enhancers	Rectal Smooth Muscle	rectum
9	chr10:27774400-27775400	Enhancers	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links