Variant report

Variant	rs1674179
Chromosome Location	chr1:85606102-85606103
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	chr1:85595082..85597196-chr1:85604765..85607066,2	MCF-7	breast:
2	chr1:85599313..85601260-chr1:85603584..85606556,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000266110	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11805650	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12021868	0.89[EUR][1000 genomes]
rs12022814	1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12023751	0.89[EUR][1000 genomes]
rs12028707	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12034359	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12034501	1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12034937	0.89[EUR][1000 genomes]
rs12036276	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12039804	0.89[EUR][1000 genomes]
rs12040408	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12041155	1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12043409	1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs12045141	1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12084434	0.81[ASN][1000 genomes]
rs17121978	0.86[JPT][hapmap];0.80[EUR][1000 genomes]
rs2790912	0.82[AFR][1000 genomes]
rs28410552	0.80[EUR][1000 genomes]
rs3013111	1.00[JPT][hapmap]
rs3209418	0.81[ASN][1000 genomes]
rs56191061	0.89[EUR][1000 genomes]
rs57516443	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs58068482	0.89[EUR][1000 genomes]
rs58246117	0.89[EUR][1000 genomes]
rs58604582	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs60875782	0.81[ASN][1000 genomes]
rs72482805	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7513769	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs817387	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs817395	0.91[EUR][1000 genomes]
rs817400	0.81[ASN][1000 genomes]
rs817410	0.81[ASN][1000 genomes]
rs817413	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs817414	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs817418	1.00[JPT][hapmap]
rs817427	1.00[JPT][hapmap]
rs817429	1.00[JPT][hapmap]
rs817430	1.00[JPT][hapmap]
rs817431	1.00[JPT][hapmap]
rs817432	1.00[JPT][hapmap]
rs817435	1.00[JPT][hapmap]
rs817437	1.00[JPT][hapmap]
rs817439	1.00[JPT][hapmap]
rs817440	1.00[JPT][hapmap]
rs817452	1.00[JPT][hapmap]

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	nsv1006994	chr1:85454304-86327679	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	esv34165	chr1:85542040-85846249	Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	nsv830459	chr1:85589585-85786311	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 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	chr1:85594800-85614400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr1:85598400-85608400	Weak transcription	Pancreas	Pancrea
3	chr1:85598600-85608600	Weak transcription	Left Ventricle	heart
4	chr1:85601000-85608400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr1:85603600-85608400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr1:85603800-85608400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr1:85603800-85609400	Weak transcription	Fetal Intestine Small	intestine
8	chr1:85603800-85614200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr1:85603800-85615600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr1:85603800-85618800	Weak transcription	Gastric	stomach
11	chr1:85603800-85632200	Weak transcription	Fetal Lung	lung
12	chr1:85604000-85606600	Weak transcription	Fetal Kidney	kidney
13	chr1:85604800-85611800	Weak transcription	Placenta	Placenta
14	chr1:85606000-85606200	Enhancers	Primary hematopoietic stem cells short term culture	blood

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