Variant report

Variant	rs1397005
Chromosome Location	chr7:80880682-80880683
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:80545834..80553200-chr7:80879354..80888784,34	MCF-7	breast:
2	chr7:80550385..80552330-chr7:80878720..80881431,3	MCF-7	breast:
3	chr7:80880483..80882765-chr7:80886437..80888337,2	MCF-7	breast:
4	chr7:80543196..80546765-chr7:80879476..80881407,3	MCF-7	breast:
5	chr7:80878967..80881454-chr7:80884468..80886098,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000075223	Chromatin interaction

Extended variants
information (count: 106 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs1015885	0.90[JPT][hapmap]
rs10244235	0.97[ASN][1000 genomes]
rs10254060	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10259342	0.82[ASN][1000 genomes]
rs10486816	0.86[CEU][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12155276	0.94[ASN][1000 genomes]
rs12531400	0.95[ASN][1000 genomes]
rs12535166	0.95[ASN][1000 genomes]
rs12707314	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs13228901	0.94[ASN][1000 genomes]
rs13229319	0.86[ASN][1000 genomes]
rs1397006	0.85[ASN][1000 genomes]
rs1509913	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs161828	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs161829	0.96[ASN][1000 genomes]
rs161830	0.97[ASN][1000 genomes]
rs161831	0.98[ASN][1000 genomes]
rs161832	0.96[ASN][1000 genomes]
rs161833	0.98[ASN][1000 genomes]
rs161834	0.96[ASN][1000 genomes]
rs161835	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs161836	0.98[ASN][1000 genomes]
rs161837	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs161838	0.96[ASN][1000 genomes]
rs161839	0.96[ASN][1000 genomes]
rs161840	0.98[ASN][1000 genomes]
rs161841	0.98[ASN][1000 genomes]
rs161842	0.98[ASN][1000 genomes]
rs161843	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs161845	0.98[ASN][1000 genomes]
rs161847	0.97[ASN][1000 genomes]
rs161848	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs161849	0.97[ASN][1000 genomes]
rs162132	0.86[ASN][1000 genomes]
rs162133	0.96[ASN][1000 genomes]
rs162134	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs162135	0.86[ASN][1000 genomes]
rs162136	0.96[ASN][1000 genomes]
rs162137	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs162138	0.87[ASN][1000 genomes]
rs17154966	0.81[ASN][1000 genomes]
rs2057776	0.81[JPT][hapmap]
rs2107392	0.97[ASN][1000 genomes]
rs2189557	0.94[ASN][1000 genomes]
rs2189558	0.94[ASN][1000 genomes]
rs2189559	0.95[ASN][1000 genomes]
rs2189561	0.92[ASN][1000 genomes]
rs2189565	0.84[CHD][hapmap]
rs2214549	0.94[ASN][1000 genomes]
rs2367489	0.90[JPT][hapmap]
rs245415	0.96[ASN][1000 genomes]
rs245416	0.96[ASN][1000 genomes]
rs245417	0.98[ASN][1000 genomes]
rs245418	0.98[ASN][1000 genomes]
rs245419	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs245420	0.86[ASN][1000 genomes]
rs245421	0.96[ASN][1000 genomes]
rs245422	0.98[ASN][1000 genomes]
rs245423	0.96[ASN][1000 genomes]
rs245424	0.98[ASN][1000 genomes]
rs245425	0.96[ASN][1000 genomes]
rs245426	0.98[ASN][1000 genomes]
rs245427	0.86[ASN][1000 genomes]
rs245429	0.86[ASN][1000 genomes]
rs245430	0.96[ASN][1000 genomes]
rs245431	0.85[ASN][1000 genomes]
rs245432	0.83[ASN][1000 genomes]
rs245433	0.84[ASN][1000 genomes]
rs245434	0.84[ASN][1000 genomes]
rs245442	0.84[ASN][1000 genomes]
rs325966	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs325967	0.94[ASN][1000 genomes]
rs325971	0.98[ASN][1000 genomes]
rs325972	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs325973	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs325974	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs325975	1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[ASN][1000 genomes]
rs325976	1.00[CHB][hapmap];0.87[JPT][hapmap];0.98[ASN][1000 genomes]
rs34356376	0.93[ASN][1000 genomes]
rs4728387	0.95[ASN][1000 genomes]
rs4732201	0.95[ASN][1000 genomes]
rs4732204	0.95[ASN][1000 genomes]
rs4732211	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs4732237	0.90[JPT][hapmap]
rs60216102	0.98[ASN][1000 genomes]
rs62465492	0.91[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs6467649	0.89[ASN][1000 genomes]
rs6965375	0.95[ASN][1000 genomes]
rs7455237	0.94[ASN][1000 genomes]
rs7784690	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7797691	0.88[ASN][1000 genomes]
rs7803017	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs976328	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034690	chr7:80520004-80987682	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv831044	chr7:80721773-80918591	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv888557	chr7:80813081-80917148	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1023149	chr7:80817550-80928090	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1029034	chr7:80838012-81137146	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv831045	chr7:80841693-81012404	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	nsv888558	chr7:80844667-80917148	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv607686	chr7:80857196-80917148	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv464608	chr7:80866153-80938045	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv607687	chr7:80866153-80938045	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv526500	chr7:80870379-80880682	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv888559	chr7:80870379-80917148	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv607688	chr7:80870379-80947517	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1397005	CD36	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:80870800-80893400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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