Variant report

Variant	rs10489786
Chromosome Location	chr1:78923251-78923252
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11162483	0.93[YRI][hapmap]
rs11162486	1.00[EUR][1000 genomes]
rs1156032	0.80[AFR][1000 genomes]
rs1332255	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1332256	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1412846	0.94[YRI][hapmap];0.89[AFR][1000 genomes]
rs1576807	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17101751	0.89[AFR][1000 genomes]
rs1888894	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1888895	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1888896	0.93[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2149032	0.94[YRI][hapmap];0.87[AFR][1000 genomes]
rs4650347	0.85[AFR][1000 genomes]
rs487376	0.93[YRI][hapmap];0.80[AFR][1000 genomes]
rs494131	0.89[AFR][1000 genomes]
rs553310	0.94[YRI][hapmap];0.82[AFR][1000 genomes]
rs564407	0.89[AFR][1000 genomes]
rs569846	0.89[AFR][1000 genomes]
rs576056	0.81[YRI][hapmap]
rs581338	0.94[YRI][hapmap];0.89[AFR][1000 genomes]
rs599583	0.94[YRI][hapmap];0.89[AFR][1000 genomes]
rs601137	0.89[AFR][1000 genomes]
rs602865	0.91[YRI][hapmap];0.89[AFR][1000 genomes]
rs626770	0.89[AFR][1000 genomes]
rs640003	0.94[YRI][hapmap];0.89[AFR][1000 genomes]
rs6424768	0.84[AFR][1000 genomes]
rs6424769	0.87[AFR][1000 genomes]
rs645528	0.89[AFR][1000 genomes]
rs664465	0.82[YRI][hapmap]
rs676130	0.94[YRI][hapmap];0.89[AFR][1000 genomes]
rs74091424	1.00[EUR][1000 genomes]
rs74091476	1.00[EUR][1000 genomes]

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	nsv1013008	chr1:78463173-78958701	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv535012	chr1:78463173-78958701	Enhancers Genic enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
3	nsv871835	chr1:78528803-79501129	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv482697	chr1:78786028-78935333	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv870807	chr1:78867347-79032598	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	1 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	chr1:78907800-78927200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links