Variant report

Variant	rs5009694
Chromosome Location	chr6:88131868-88131869
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:88128812..88133308-chr6:88181739..88184809,7	MCF-7	breast:
2	chr6:88117186..88119643-chr6:88130887..88134012,4	MCF-7	breast:
3	chr6:88116969..88118490-chr6:88130812..88132983,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C6orf165-1	chr6:88131398-88131899	ucscGeneNc_uc003pls_2

Variant related genes	Relation type
ENSG00000213204	Chromatin interaction
ENSG00000164414	Chromatin interaction
ENSG00000272514	Chromatin interaction

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs1051550	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11964198	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11964212	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11964237	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11966859	0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12529410	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12529423	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12661245	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12663865	0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs13211410	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13211836	0.89[ASN][1000 genomes]
rs13217485	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34977536	0.83[ASN][1000 genomes]
rs35332886	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35869302	0.80[ASN][1000 genomes]
rs3736740	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4329082	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4707365	0.88[ASN][1000 genomes]
rs4707367	0.88[ASN][1000 genomes]
rs4707368	0.88[ASN][1000 genomes]
rs4707369	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4707370	0.94[ASN][1000 genomes]
rs4707371	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4707372	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6454611	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6454612	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6454613	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6454614	0.87[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6454615	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6454617	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6454621	0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6454624	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6899561	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6900397	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6906433	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6907825	0.89[ASN][1000 genomes]
rs6909168	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6910429	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6912282	0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6912300	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6912442	0.94[ASN][1000 genomes]
rs6912875	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6919775	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6920937	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6930072	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6940716	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7744338	0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7744793	0.88[ASN][1000 genomes]
rs7746469	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7749047	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7749162	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7753821	0.86[ASN][1000 genomes]
rs7760108	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7761462	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7764266	0.94[ASN][1000 genomes]
rs7766462	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7767220	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7773262	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7773804	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs926946	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9294378	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9344708	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9353484	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9353486	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9353487	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9353488	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9362428	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9444493	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9444494	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9444495	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9444496	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9450674	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9450675	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9450676	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9450682	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[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	nsv1018155	chr6:88049729-88272862	Strong transcription Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv830722	chr6:88054186-88223625	Enhancers Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1031961	chr6:88110401-88367006	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 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	chr6:88131600-88132200	Enhancers	Placenta	Placenta

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