Variant report

Variant	rs10061049
Chromosome Location	chr5:107765693-107765694
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:107716604..107720208-chr5:107763406..107767429,4	MCF-7	breast:
2	chr5:107765623..107768085-chr5:107772135..107774464,2	K562	blood:

Variant related genes	Relation type
ENSG00000145743	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10035966	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10040007	1.00[CHB][hapmap]
rs10045002	1.00[CHB][hapmap]
rs10045508	0.89[EUR][1000 genomes]
rs10054662	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10057896	1.00[CHB][hapmap]
rs10071499	1.00[CHB][hapmap]
rs10075370	1.00[CHB][hapmap]
rs10078397	0.89[EUR][1000 genomes]
rs10463587	0.91[EUR][1000 genomes]
rs10477896	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11240962	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11742268	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11948261	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11949077	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11949079	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12187433	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13361152	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1510967	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17388874	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17454114	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2076794	1.00[CHB][hapmap]
rs2112303	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28572757	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28752150	1.00[ASN][1000 genomes]
rs2922431	1.00[CHB][hapmap]
rs2966788	1.00[CHB][hapmap]
rs2966823	1.00[CHB][hapmap];0.82[LWK][hapmap]
rs2966825	1.00[CHB][hapmap];0.81[LWK][hapmap]
rs2966829	1.00[CHB][hapmap]
rs2966833	1.00[CHB][hapmap]
rs4413518	0.87[EUR][1000 genomes]
rs4957551	1.00[CHB][hapmap]
rs57370105	0.92[ASN][1000 genomes]
rs59423465	0.92[EUR][1000 genomes]
rs60045633	0.92[EUR][1000 genomes]
rs60896544	0.92[EUR][1000 genomes]
rs62362279	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62362281	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62362302	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6594295	1.00[CHB][hapmap]
rs6863456	1.00[CHB][hapmap]
rs6869057	1.00[CHB][hapmap]
rs6876738	0.89[EUR][1000 genomes]
rs6880727	1.00[CHB][hapmap]
rs6881232	0.92[EUR][1000 genomes]
rs6881879	1.00[CHB][hapmap]
rs6885988	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6895295	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7706429	1.00[CHB][hapmap]
rs7714342	0.93[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7720469	0.93[CEU][hapmap];0.91[EUR][1000 genomes]
rs7720841	0.92[EUR][1000 genomes]
rs7727051	1.00[CHB][hapmap]
rs7733311	1.00[CHB][hapmap]
rs9326727	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882683	chr5:107476501-107769095	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv882686	chr5:107564746-107769095	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv882689	chr5:107595383-108299744	Enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10061049	NCRNA00219	cis	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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