Variant report

Variant	rs10173563
Chromosome Location	chr2:39185389-39185390
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	chr2:39183680..39185526-chr2:39186357..39188173,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000214694	Chromatin interaction
ENSG00000269210	Chromatin interaction

Extended variants
information (count: 91 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs10166557	1.00[EUR][1000 genomes]
rs10173380	1.00[EUR][1000 genomes]
rs10184046	1.00[EUR][1000 genomes]
rs10184855	1.00[EUR][1000 genomes]
rs10186842	1.00[EUR][1000 genomes]
rs10188701	1.00[EUR][1000 genomes]
rs10189440	1.00[EUR][1000 genomes]
rs10194533	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10196863	1.00[EUR][1000 genomes]
rs10199955	1.00[EUR][1000 genomes]
rs10202876	1.00[EUR][1000 genomes]
rs10203565	1.00[EUR][1000 genomes]
rs10207187	1.00[EUR][1000 genomes]
rs10207984	1.00[EUR][1000 genomes]
rs10495882	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1059313	0.80[ASN][1000 genomes]
rs12329307	1.00[EUR][1000 genomes]
rs13387231	1.00[EUR][1000 genomes]
rs13394446	1.00[EUR][1000 genomes]
rs13395448	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13407659	1.00[EUR][1000 genomes]
rs13411756	1.00[EUR][1000 genomes]
rs13416725	1.00[EUR][1000 genomes]
rs13424493	1.00[EUR][1000 genomes]
rs13425165	1.00[EUR][1000 genomes]
rs13428418	1.00[EUR][1000 genomes]
rs13432395	1.00[EUR][1000 genomes]
rs1451278	1.00[EUR][1000 genomes]
rs17023148	1.00[EUR][1000 genomes]
rs17023149	1.00[EUR][1000 genomes]
rs17023214	1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs17023241	1.00[EUR][1000 genomes]
rs17023292	1.00[EUR][1000 genomes]
rs17425982	1.00[EUR][1000 genomes]
rs1901290	1.00[EUR][1000 genomes]
rs2218850	1.00[EUR][1000 genomes]
rs2373466	1.00[EUR][1000 genomes]
rs2373472	1.00[EUR][1000 genomes]
rs3099938	1.00[EUR][1000 genomes]
rs3099953	1.00[EUR][1000 genomes]
rs3099973	1.00[EUR][1000 genomes]
rs3099986	1.00[EUR][1000 genomes]
rs3099996	1.00[EUR][1000 genomes]
rs3099997	1.00[EUR][1000 genomes]
rs3112145	1.00[EUR][1000 genomes]
rs3112146	1.00[EUR][1000 genomes]
rs3112148	1.00[EUR][1000 genomes]
rs3112155	1.00[EUR][1000 genomes]
rs3112157	1.00[EUR][1000 genomes]
rs3112158	1.00[EUR][1000 genomes]
rs3112160	1.00[EUR][1000 genomes]
rs3112164	1.00[EUR][1000 genomes]
rs3112174	1.00[EUR][1000 genomes]
rs3112177	1.00[EUR][1000 genomes]
rs55890805	1.00[EUR][1000 genomes]
rs56269328	1.00[EUR][1000 genomes]
rs56724744	1.00[EUR][1000 genomes]
rs57359008	1.00[EUR][1000 genomes]
rs58020380	0.94[ASN][1000 genomes]
rs59259697	1.00[EUR][1000 genomes]
rs60703378	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61596046	1.00[EUR][1000 genomes]
rs6544200	1.00[EUR][1000 genomes]
rs6734212	1.00[EUR][1000 genomes]
rs6737680	1.00[EUR][1000 genomes]
rs6751306	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6753426	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6754613	1.00[EUR][1000 genomes]
rs718312	1.00[EUR][1000 genomes]
rs72906436	1.00[EUR][1000 genomes]
rs72906467	1.00[EUR][1000 genomes]
rs72916836	1.00[EUR][1000 genomes]
rs72916860	1.00[EUR][1000 genomes]
rs72918710	1.00[EUR][1000 genomes]
rs72925431	1.00[EUR][1000 genomes]
rs72925433	1.00[EUR][1000 genomes]
rs72925439	1.00[EUR][1000 genomes]
rs7340303	1.00[EUR][1000 genomes]
rs73930506	1.00[EUR][1000 genomes]
rs7559586	1.00[EUR][1000 genomes]
rs7564481	1.00[EUR][1000 genomes]
rs7565814	1.00[EUR][1000 genomes]
rs7571608	1.00[EUR][1000 genomes]
rs7571719	1.00[EUR][1000 genomes]
rs7574214	1.00[EUR][1000 genomes]
rs7582586	1.00[EUR][1000 genomes]
rs7589303	1.00[EUR][1000 genomes]
rs7599990	1.00[EUR][1000 genomes]
rs9646968	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873884	chr2:39154463-39332093	Genic enhancers Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	esv2755359	chr2:39169049-39417849	Strong transcription Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39110200-39186800	Weak transcription	Stomach Smooth Muscle	stomach
2	chr2:39150000-39186600	Weak transcription	Brain Anterior Caudate	brain
3	chr2:39160400-39186600	Weak transcription	Pancreas	Pancrea
4	chr2:39175000-39186600	Weak transcription	Ovary	ovary
5	chr2:39175000-39187000	Weak transcription	Brain Angular Gyrus	brain
6	chr2:39175200-39186800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr2:39176600-39186600	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr2:39184200-39185600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
9	chr2:39184600-39186600	Weak transcription	Rectal Smooth Muscle	rectum
10	chr2:39184800-39185400	Enhancers	Psoas Muscle	Psoas
11	chr2:39184800-39185400	Enhancers	Skeletal Muscle Female	skeletal muscle
12	chr2:39184800-39185600	Enhancers	Skeletal Muscle Male	skeletal muscle
13	chr2:39185200-39185400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr2:39185200-39185400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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