Variant report

Variant	rs12705041
Chromosome Location	chr7:98804967-98804968
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:98738526..98746153-chr7:98804876..98809686,18	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198742	Chromatin interaction

Extended variants
information (count: 98 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10499949	1.00[CEU][hapmap];0.85[CHD][hapmap];0.91[MEX][hapmap];0.91[AMR][1000 genomes]
rs12673754	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12705032	0.88[AMR][1000 genomes]
rs12705033	0.91[AMR][1000 genomes]
rs12705034	1.00[CEU][hapmap];0.91[AMR][1000 genomes]
rs12705035	1.00[CEU][hapmap];0.91[AMR][1000 genomes]
rs12705036	1.00[CEU][hapmap];0.85[CHD][hapmap];0.91[MEX][hapmap];0.91[AMR][1000 genomes]
rs12705038	0.91[AMR][1000 genomes]
rs12705039	0.91[AMR][1000 genomes]
rs12705040	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12705042	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12705043	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12705044	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12705045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12705046	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12705047	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12705048	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12705049	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12705050	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12705051	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12705052	1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12705054	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13221427	0.91[AMR][1000 genomes]
rs13224433	1.00[CEU][hapmap];0.88[AMR][1000 genomes]
rs13236786	0.91[AMR][1000 genomes]
rs13236896	0.91[AMR][1000 genomes]
rs13237093	0.91[AMR][1000 genomes]
rs13238146	0.86[AMR][1000 genomes]
rs13239506	1.00[CEU][hapmap];0.91[AMR][1000 genomes]
rs13239596	1.00[CEU][hapmap];0.85[CHD][hapmap];0.91[MEX][hapmap];0.91[AMR][1000 genomes]
rs13242894	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13244043	0.88[AMR][1000 genomes]
rs13244327	1.00[CEU][hapmap];0.83[AMR][1000 genomes]
rs13244579	0.91[AMR][1000 genomes]
rs13244583	0.91[AMR][1000 genomes]
rs13244592	0.91[AMR][1000 genomes]
rs13247718	0.91[AMR][1000 genomes]
rs13247877	1.00[CEU][hapmap];0.91[AMR][1000 genomes]
rs13309003	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13310182	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13310534	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16867592	1.00[CEU][hapmap];0.88[AMR][1000 genomes]
rs17161611	1.00[CEU][hapmap];0.91[AMR][1000 genomes]
rs17161615	1.00[CEU][hapmap];0.91[AMR][1000 genomes]
rs17161617	1.00[CEU][hapmap];0.85[CHD][hapmap];0.91[MEX][hapmap];0.91[AMR][1000 genomes]
rs17161618	1.00[CEU][hapmap];0.82[CHD][hapmap];0.91[MEX][hapmap]
rs17161622	1.00[CEU][hapmap];0.85[CHD][hapmap];0.91[MEX][hapmap]
rs34088480	0.91[AMR][1000 genomes]
rs34221671	0.91[AMR][1000 genomes]
rs34250243	0.91[AMR][1000 genomes]
rs34350957	0.91[AMR][1000 genomes]
rs34482096	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34617837	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34715870	0.91[AMR][1000 genomes]
rs34724557	0.91[AMR][1000 genomes]
rs34929886	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34988009	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35244406	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35312766	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs35397579	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35511099	0.91[AMR][1000 genomes]
rs35597916	0.91[AMR][1000 genomes]
rs35611495	0.83[AMR][1000 genomes]
rs35615419	0.91[AMR][1000 genomes]
rs61749907	0.91[AMR][1000 genomes]
rs6651108	0.84[MEX][hapmap]
rs66785725	0.91[AMR][1000 genomes]
rs66931650	0.81[AMR][1000 genomes]
rs67422346	0.81[AMR][1000 genomes]
rs67723713	0.91[AMR][1000 genomes]
rs67749476	0.91[AMR][1000 genomes]
rs68076840	0.91[AMR][1000 genomes]
rs71567531	0.91[AMR][1000 genomes]
rs71567533	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71567534	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71567535	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71567536	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73401379	0.91[AMR][1000 genomes]
rs73401390	0.88[AMR][1000 genomes]
rs73403103	0.91[AMR][1000 genomes]
rs73403107	0.88[AMR][1000 genomes]
rs7778995	0.91[AMR][1000 genomes]
rs7779268	1.00[CEU][hapmap];0.91[AMR][1000 genomes]
rs7779342	1.00[CEU][hapmap];0.91[AMR][1000 genomes]
rs7783606	1.00[CEU][hapmap];0.91[AMR][1000 genomes]
rs7783618	0.91[AMR][1000 genomes]
rs7787830	1.00[CEU][hapmap];0.85[CHD][hapmap];0.91[MEX][hapmap];0.88[AMR][1000 genomes]
rs7788790	1.00[CEU][hapmap];0.85[CHD][hapmap];0.91[MEX][hapmap];0.91[AMR][1000 genomes]
rs7789312	1.00[CEU][hapmap];0.91[AMR][1000 genomes]
rs7793425	1.00[CEU][hapmap];0.85[CHD][hapmap];0.91[MEX][hapmap];0.91[AMR][1000 genomes]
rs7793510	0.91[AMR][1000 genomes]
rs7795644	0.91[MEX][hapmap]
rs7798877	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs7805070	1.00[CEU][hapmap];0.91[AMR][1000 genomes]
rs7806230	0.91[AMR][1000 genomes]
rs7808942	1.00[CEU][hapmap];0.91[AMR][1000 genomes]
rs7809188	1.00[CEU][hapmap];0.85[CHD][hapmap];0.91[MEX][hapmap];0.91[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3433144	chr7:98777878-99060209	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:98801400-98807600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr7:98802000-98805600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr7:98802600-98805600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr7:98802600-98823400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr7:98803600-98805400	Enhancers	HepG2	liver
6	chr7:98803600-98807800	Enhancers	Stomach Mucosa	stomach
7	chr7:98804200-98805400	Enhancers	A549	lung
8	chr7:98804400-98807800	Enhancers	Rectal Mucosa Donor 31	rectum
9	chr7:98804600-98805600	Enhancers	Hela-S3	cervix
10	chr7:98804800-98805000	Enhancers	Sigmoid Colon	Sigmoid Colon
11	chr7:98804800-98805200	Enhancers	Rectal Mucosa Donor 29	rectum
12	chr7:98804800-98809600	Enhancers	Fetal Intestine Small	intestine

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