Variant report

Variant	rs16831471
Chromosome Location	chr3:160513953-160513954
allele	C/G
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: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs1455870	0.94[EUR][1000 genomes]
rs1455871	0.94[EUR][1000 genomes]
rs16831442	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16831457	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16831473	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16831475	0.84[AFR][1000 genomes]
rs16831478	0.84[AFR][1000 genomes]
rs16831516	0.94[EUR][1000 genomes]
rs16831520	0.94[EUR][1000 genomes]
rs17236620	0.94[EUR][1000 genomes]
rs17236641	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17236648	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17236655	1.00[EUR][1000 genomes]
rs17236662	0.94[EUR][1000 genomes]
rs17826352	0.94[EUR][1000 genomes]
rs17826358	0.94[EUR][1000 genomes]
rs17826364	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17826370	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17826376	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2068817	0.94[EUR][1000 genomes]
rs34035435	0.97[EUR][1000 genomes]
rs3907061	0.94[EUR][1000 genomes]
rs4549318	0.97[EUR][1000 genomes]
rs4627794	1.00[EUR][1000 genomes]
rs55891037	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55905728	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55923270	0.94[EUR][1000 genomes]
rs55997050	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56083575	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56141155	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56157815	1.00[EUR][1000 genomes]
rs56180903	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56331465	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57828617	0.94[EUR][1000 genomes]
rs58891820	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61459435	0.83[AFR][1000 genomes]
rs6771910	0.94[EUR][1000 genomes]
rs6779461	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73877952	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73877964	0.82[AFR][1000 genomes]
rs73877966	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7618082	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7618596	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7629154	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7633282	0.84[AFR][1000 genomes]
rs7633401	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[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:27 , 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	chr3:160509000-160514000	Weak transcription	Adipose Nuclei	Adipose
4	chr3:160509000-160522600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr3:160509600-160519000	Weak transcription	Stomach Smooth Muscle	stomach
6	chr3:160510400-160514200	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr3:160510800-160514000	Weak transcription	Right Atrium	heart
8	chr3:160511200-160515000	Enhancers	Fetal Heart	heart
9	chr3:160511400-160518400	Weak transcription	Primary T cells from cord blood	blood
10	chr3:160511800-160519800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr3:160512200-160515600	Enhancers	Stomach Mucosa	stomach
12	chr3:160512600-160514000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:160512600-160514200	Enhancers	Left Ventricle	heart
14	chr3:160512600-160514200	Enhancers	Psoas Muscle	Psoas
15	chr3:160512600-160514400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr3:160512600-160515600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr3:160512800-160514400	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr3:160512800-160519400	Weak transcription	Colon Smooth Muscle	Colon
19	chr3:160513200-160514200	Enhancers	HUES48 Cell Line	embryonic stem cell
20	chr3:160513200-160515200	Enhancers	HUES64 Cell Line	embryonic stem cell
21	chr3:160513400-160519000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr3:160513400-160522600	Weak transcription	Pancreas	Pancrea
23	chr3:160513600-160514400	Enhancers	iPS-18 Cell Line	embryonic stem cell
24	chr3:160513600-160515600	Enhancers	Skeletal Muscle Female	skeletal muscle
25	chr3:160513800-160514400	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr3:160513800-160515600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
27	chr3:160513800-160519600	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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