Variant report

Variant	rs6535777
Chromosome Location	chr4:152164679-152164680
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	chr4:152159933..152162263-chr4:152163504..152165739,2	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10016998	0.81[ASN][1000 genomes]
rs10213332	0.81[ASN][1000 genomes]
rs10857256	0.81[ASN][1000 genomes]
rs11099794	0.81[ASN][1000 genomes]
rs11099795	0.81[ASN][1000 genomes]
rs11729981	0.81[ASN][1000 genomes]
rs11730087	0.81[ASN][1000 genomes]
rs12500223	0.81[ASN][1000 genomes]
rs13149045	0.81[ASN][1000 genomes]
rs1316364	0.81[ASN][1000 genomes]
rs1320006	0.81[ASN][1000 genomes]
rs1320007	0.81[ASN][1000 genomes]
rs1320192	0.81[ASN][1000 genomes]
rs1878796	0.81[ASN][1000 genomes]
rs2407406	0.81[ASN][1000 genomes]
rs2407411	0.81[ASN][1000 genomes]
rs2407414	0.81[ASN][1000 genomes]
rs2407415	0.81[ASN][1000 genomes]
rs2897657	0.81[ASN][1000 genomes]
rs4616734	0.81[ASN][1000 genomes]
rs4696235	0.81[ASN][1000 genomes]
rs4696237	0.81[ASN][1000 genomes]
rs6535776	0.81[ASN][1000 genomes]
rs6823953	0.81[ASN][1000 genomes]
rs6828937	0.81[ASN][1000 genomes]
rs6838301	0.81[ASN][1000 genomes]
rs6838845	0.81[ASN][1000 genomes]
rs6847669	0.81[ASN][1000 genomes]
rs7666751	0.81[ASN][1000 genomes]
rs7681030	0.81[ASN][1000 genomes]
rs7687117	0.81[ASN][1000 genomes]
rs7690329	0.81[ASN][1000 genomes]
rs7695005	0.81[ASN][1000 genomes]
rs938990	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034948	chr4:151590115-152202687	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv537302	chr4:151590115-152202687	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv530159	chr4:151624865-152203910	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	nsv880262	chr4:151712054-152519899	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
5	nsv881526	chr4:151968295-152489087	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:152129000-152168000	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr4:152129400-152167800	Weak transcription	Right Ventricle	heart
3	chr4:152130200-152187800	Weak transcription	Duodenum Mucosa	Duodenum
4	chr4:152141000-152167400	Weak transcription	HepG2	liver
5	chr4:152149200-152172000	Weak transcription	Left Ventricle	heart
6	chr4:152149200-152185200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr4:152149200-152197600	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr4:152149600-152173000	Weak transcription	Right Atrium	heart
9	chr4:152156000-152179800	Weak transcription	Fetal Stomach	stomach
10	chr4:152157600-152167800	Weak transcription	Fetal Intestine Large	intestine
11	chr4:152158800-152178800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr4:152158800-152181800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr4:152160600-152172000	Weak transcription	Brain Hippocampus Middle	brain
14	chr4:152163200-152165200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr4:152163200-152165800	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr4:152163400-152165400	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr4:152163600-152164800	Enhancers	HUES6 Cell Line	embryonic stem cell
18	chr4:152163600-152166800	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr4:152163600-152166800	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr4:152163600-152166800	Enhancers	iPS-20b Cell Line	embryonic stem cell
21	chr4:152163800-152169000	Weak transcription	Fetal Intestine Small	intestine
22	chr4:152163800-152171000	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr4:152163800-152172000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr4:152164000-152165000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr4:152164000-152165000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr4:152164200-152165200	Enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr4:152164200-152165600	Enhancers	iPS-15b Cell Line	embryonic stem cell
28	chr4:152164400-152165000	Weak transcription	HUES64 Cell Line	embryonic stem cell
29	chr4:152164400-152165000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr4:152164400-152165800	Enhancers	Fetal Heart	heart
31	chr4:152164600-152165400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr4:152164600-152165800	Enhancers	Brain Anterior Caudate	brain

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