Variant report

Variant	rs12616809
Chromosome Location	chr2:182610797-182610798
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:182609276..182611148-chr2:182952196..182955107,2	MCF-7	breast:
2	chr2:182609007..182611805-chr2:182613664..182615671,2	MCF-7	breast:
3	chr2:182610484..182612356-chr2:182620509..182622208,2	MCF-7	breast:
4	chr2:182606478..182612379-chr2:182941539..182945973,8	MCF-7	breast:
5	chr2:182608011..182609726-chr2:182609960..182611902,2	MCF-7	breast:
6	chr2:182601728..182612786-chr2:182754371..182769481,60	MCF-7	breast:
7	chr2:182601328..182613741-chr2:182753153..182773539,79	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138434	Chromatin interaction
ENSG00000265129	Chromatin interaction
ENSG00000260742	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10175898	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10188644	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10497584	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12613662	0.96[ASN][1000 genomes]
rs12616753	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12617923	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12619962	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12623595	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12996195	0.84[ASN][1000 genomes]
rs1372130	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1441158	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1441159	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16867481	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16867483	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16867485	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16867486	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16867487	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs16867489	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16867490	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16867491	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16867492	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2583004	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2583005	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2696332	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2696333	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2696338	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2696340	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2696341	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2696342	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2696346	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28394061	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28464322	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28589860	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2859677	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28654292	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28718983	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2950649	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57227873	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58618231	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7590839	0.80[ASN][1000 genomes]
rs8192554	0.91[EUR][1000 genomes]
rs832643	0.84[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	nsv1005870	chr2:181968637-182921439	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv536063	chr2:181968637-182921439	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv1001558	chr2:182590009-182732738	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:182608600-182612400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:182609200-182615600	Weak transcription	Hela-S3	cervix

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