Variant report

Variant	rs1915929
Chromosome Location	chr3:160514100-160514101
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160513259..160516252-chr3:160518883..160520924,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10513553	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12487861	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13080397	0.87[EUR][1000 genomes]
rs1378654	0.93[ASN][1000 genomes]
rs1378657	0.89[ASN][1000 genomes]
rs1378658	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1455869	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1598495	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs1829716	0.80[AFR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1851378	0.92[AFR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1902282	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2049214	0.91[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2049215	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4256178	0.87[EUR][1000 genomes]
rs59542611	0.85[ASN][1000 genomes]
rs6775743	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6794047	0.90[AFR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs718757	0.87[ASN][1000 genomes]
rs722871	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7618832	0.86[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs7630250	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs779058	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs972909	0.91[AFR][1000 genomes];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9814394	0.86[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs9815499	0.86[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs9824439	0.84[EUR][1000 genomes]
rs9833075	0.89[ASN][1000 genomes]
rs9866566	0.88[ASN][1000 genomes]
rs9868489	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[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	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1009249	chr3:160496237-160627378	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv536780	chr3:160496237-160627378	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160498400-160522600	Weak transcription	Right Ventricle	heart
2	chr3:160503600-160514600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr3:160509000-160522600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr3:160509600-160519000	Weak transcription	Stomach Smooth Muscle	stomach
5	chr3:160510400-160514200	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr3:160511200-160515000	Enhancers	Fetal Heart	heart
7	chr3:160511400-160518400	Weak transcription	Primary T cells from cord blood	blood
8	chr3:160511800-160519800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr3:160512200-160515600	Enhancers	Stomach Mucosa	stomach
10	chr3:160512600-160514200	Enhancers	Left Ventricle	heart
11	chr3:160512600-160514200	Enhancers	Psoas Muscle	Psoas
12	chr3:160512600-160514400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr3:160512600-160515600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr3:160512800-160514400	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr3:160512800-160519400	Weak transcription	Colon Smooth Muscle	Colon
16	chr3:160513200-160514200	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr3:160513200-160515200	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr3:160513400-160519000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr3:160513400-160522600	Weak transcription	Pancreas	Pancrea
20	chr3:160513600-160514400	Enhancers	iPS-18 Cell Line	embryonic stem cell
21	chr3:160513600-160515600	Enhancers	Skeletal Muscle Female	skeletal muscle
22	chr3:160513800-160514400	Enhancers	Skeletal Muscle Male	skeletal muscle
23	chr3:160513800-160515600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr3:160513800-160519600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr3:160514000-160514600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr3:160514000-160514600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr3:160514000-160514600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr3:160514000-160514800	Enhancers	Rectal Mucosa Donor 31	rectum
29	chr3:160514000-160514800	Enhancers	Right Atrium	heart
30	chr3:160514000-160515400	Enhancers	Liver	Liver
31	chr3:160514000-160515400	Enhancers	Hela-S3	cervix
32	chr3:160514000-160515600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr3:160514000-160515600	Enhancers	Adipose Nuclei	Adipose

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