Variant report

Variant	rs9832970
Chromosome Location	chr3:159352143-159352144
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	chr3:159351342..159356372-chr3:159480280..159483892,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000250588	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10154893	0.84[ASN][1000 genomes]
rs11921824	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11921827	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12107648	0.85[ASN][1000 genomes]
rs13434009	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1343824	0.85[ASN][1000 genomes]
rs1347671	0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1347672	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1437520	0.91[ASN][1000 genomes]
rs16830519	0.84[ASN][1000 genomes]
rs16830523	0.84[ASN][1000 genomes]
rs16830534	0.86[ASN][1000 genomes]
rs16830546	0.88[ASN][1000 genomes]
rs16830575	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16830579	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16830581	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16830589	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1816621	0.91[ASN][1000 genomes]
rs1816622	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1962890	0.86[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1978830	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28434644	1.00[ASN][1000 genomes]
rs28743043	0.84[ASN][1000 genomes]
rs2886621	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4494974	0.91[ASN][1000 genomes]
rs59556163	0.85[ASN][1000 genomes]
rs60665389	0.80[ASN][1000 genomes]
rs61018732	0.85[ASN][1000 genomes]
rs61373569	0.85[ASN][1000 genomes]
rs6772245	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73012253	0.86[ASN][1000 genomes]
rs750688	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9290046	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9290047	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9809076	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9819000	0.84[ASN][1000 genomes]
rs9819080	0.86[ASN][1000 genomes]
rs9824363	0.85[ASN][1000 genomes]
rs9826417	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9829310	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9842465	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9848763	0.91[ASN][1000 genomes]
rs9848897	0.91[ASN][1000 genomes]
rs9849705	0.84[ASN][1000 genomes]
rs9851700	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9867212	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9870872	0.86[ASN][1000 genomes]
rs9877425	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9879792	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9882328	0.91[ASN][1000 genomes]
rs9883498	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][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	nsv998949	chr3:158774806-159394550	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159346000-159352800	Weak transcription	Fetal Heart	heart
2	chr3:159347400-159352400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr3:159347600-159352400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr3:159347800-159352200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr3:159347800-159352200	Weak transcription	Osteobl	bone
6	chr3:159348000-159352200	Weak transcription	NHDF-Ad	bronchial
7	chr3:159349600-159353000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr3:159349800-159352600	Weak transcription	Gastric	stomach
9	chr3:159350000-159353200	Enhancers	Hela-S3	cervix
10	chr3:159350200-159352200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr3:159350600-159352200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr3:159350600-159352800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr3:159350600-159358200	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr3:159350800-159352200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr3:159350800-159352200	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr3:159350800-159353200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr3:159351000-159352200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr3:159351000-159352400	Weak transcription	HSMMtube	muscle
19	chr3:159351200-159352200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr3:159351200-159352200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr3:159351200-159352200	Weak transcription	HMEC	breast
22	chr3:159351200-159352200	Weak transcription	HSMM	muscle
23	chr3:159351200-159352400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr3:159351200-159352400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr3:159351200-159352400	Weak transcription	Fetal Intestine Large	intestine
26	chr3:159351600-159353400	Enhancers	Muscle Satellite Cultured Cells	--
27	chr3:159351600-159353600	Enhancers	NHLF	lung
28	chr3:159351800-159352800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr3:159351800-159353000	Enhancers	HUES64 Cell Line	embryonic stem cell
30	chr3:159351800-159353600	Flanking Active TSS	A549	lung
31	chr3:159351800-159353600	Enhancers	NH-A	brain
32	chr3:159352000-159352200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr3:159352000-159353000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr3:159352000-159353200	Enhancers	NHEK	skin

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