Variant report

Variant	rs6913697
Chromosome Location	chr6:11491223-11491224
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:11489653..11491693-chr6:11494680..11496394,2	MCF-7	breast:

Extended variants
information (count: 89 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs10807114	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10807115	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10947398	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11751884	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11752836	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11755780	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11756371	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12192094	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12194771	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12198765	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12198774	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12198950	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12200391	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12200454	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12528839	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs145176	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1923525	0.86[ASN][1000 genomes]
rs2025184	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2025185	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2758307	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2807964	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs295051	0.85[EUR][1000 genomes]
rs3857556	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4711306	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4713593	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4713594	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4713618	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs480684	0.85[ASN][1000 genomes]
rs486127	0.84[ASN][1000 genomes]
rs487729	0.85[ASN][1000 genomes]
rs490327	0.88[ASN][1000 genomes]
rs493183	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs505685	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs505839	0.84[ASN][1000 genomes]
rs518183	0.84[ASN][1000 genomes]
rs528012	0.85[ASN][1000 genomes]
rs528087	0.85[ASN][1000 genomes]
rs533319	0.86[ASN][1000 genomes]
rs562508	0.86[ASN][1000 genomes]
rs568867	0.85[ASN][1000 genomes]
rs570714	0.85[ASN][1000 genomes]
rs575164	0.85[ASN][1000 genomes]
rs588948	0.85[ASN][1000 genomes]
rs601505	0.86[ASN][1000 genomes]
rs609135	0.85[ASN][1000 genomes]
rs616729	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs617157	0.85[ASN][1000 genomes]
rs618573	0.86[ASN][1000 genomes]
rs618998	0.86[ASN][1000 genomes]
rs620867	0.85[ASN][1000 genomes]
rs623024	0.85[ASN][1000 genomes]
rs651001	0.81[ASN][1000 genomes]
rs671048	0.86[ASN][1000 genomes]
rs6899820	0.84[ASN][1000 genomes]
rs6901328	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6907796	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6908807	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6914208	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6914420	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6915153	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6915366	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6916089	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6930371	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6932324	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6940859	0.87[AMR][1000 genomes]
rs6941011	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6941700	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7770004	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9348892	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9348895	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9348896	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9357154	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9366805	0.85[AMR][1000 genomes]
rs9366806	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9380310	0.84[AMR][1000 genomes]
rs9380311	0.84[AMR][1000 genomes]
rs9380315	0.84[AMR][1000 genomes]
rs9394102	0.84[AMR][1000 genomes]
rs9394117	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9394123	0.86[ASN][1000 genomes]
rs9394146	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9394154	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv432848	chr6:11371614-11560114	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	esv3357042	chr6:11489266-11493964	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	esv3372842	chr6:11489366-11493264	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	esv3396914	chr6:11489566-11493564	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	esv3441435	chr6:11489666-11493664	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6913697	TMEM170B	cis	Skin Sun Exposed Lower leg	GTEx
rs6913697	TMEM170B	cis	Adipose Subcutaneous	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11483800-11495000	Weak transcription	Pancreas	Pancrea
2	chr6:11486800-11496000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr6:11486800-11496800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:11487000-11495000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:11487400-11495800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr6:11487400-11495800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr6:11488000-11491400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr6:11491000-11492000	Weak transcription	A549	lung
9	chr6:11491200-11491800	ZNF genes & repeats	Fetal Kidney	kidney

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