Variant report

Variant	rs1617649
Chromosome Location	chr8:89485927-89485928
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:89484552..89486972-chr8:89493624..89495298,2	MCF-7	breast:

Extended variants
information (count: 87 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs10088444	0.81[ASN][1000 genomes]
rs10283316	0.85[ASN][1000 genomes]
rs10481112	0.82[ASN][1000 genomes]
rs1094206	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10955586	0.85[ASN][1000 genomes]
rs12156301	0.85[ASN][1000 genomes]
rs12548636	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12681181	0.86[EUR][1000 genomes]
rs12682164	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13251103	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1386767	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1394514	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1394517	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1394518	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1394519	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1463923	0.85[ASN][1000 genomes]
rs1504797	0.82[EUR][1000 genomes]
rs1601818	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1601819	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1601820	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1601821	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1685541	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1685549	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1685551	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1685553	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1685554	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1685559	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16882450	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1700150	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1700154	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1700155	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1857753	0.85[ASN][1000 genomes]
rs1857754	0.85[ASN][1000 genomes]
rs1857755	0.82[ASN][1000 genomes]
rs1875904	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2134962	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2134964	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2656311	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2656312	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28417952	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28705947	0.82[ASN][1000 genomes]
rs3105405	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3105406	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3105407	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3105409	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3110414	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3110415	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3110416	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3110417	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4246112	0.81[ASN][1000 genomes]
rs4246113	0.81[ASN][1000 genomes]
rs4246115	0.85[ASN][1000 genomes]
rs4275260	0.85[ASN][1000 genomes]
rs4305946	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4320597	0.85[ASN][1000 genomes]
rs4395936	0.82[ASN][1000 genomes]
rs4434662	0.85[ASN][1000 genomes]
rs4483202	0.85[ASN][1000 genomes]
rs4515601	0.82[ASN][1000 genomes]
rs4548227	0.82[ASN][1000 genomes]
rs4625076	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4961086	0.82[ASN][1000 genomes]
rs4961087	0.82[ASN][1000 genomes]
rs4961090	0.82[ASN][1000 genomes]
rs4961093	0.85[ASN][1000 genomes]
rs4961094	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4961096	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56084092	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56187488	0.85[ASN][1000 genomes]
rs6989866	0.85[ASN][1000 genomes]
rs7009149	0.82[ASN][1000 genomes]
rs7828497	0.82[ASN][1000 genomes]
rs7834603	0.89[EUR][1000 genomes]
rs7835845	0.82[ASN][1000 genomes]
rs7838159	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs821100	0.95[ASN][1000 genomes]
rs821111	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs821114	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs821117	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs821118	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs821119	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs821120	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs821121	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs866592	0.91[AMR][1000 genomes];0.96[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	nsv1029898	chr8:88837956-89606641	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv1030028	chr8:89060085-89733470	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv891172	chr8:89439469-89640705	Enhancers Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1617649	MMP16	cis	Skin Sun Exposed Lower leg	GTEx
rs1617649	MMP16	cis	Thyroid	GTEx

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:89478400-89486400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr8:89484000-89486200	Weak transcription	Pancreas	Pancrea

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