Variant report

Variant	rs6869542
Chromosome Location	chr5:179706099-179706100
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	chr5:179698936..179702470-chr5:179704973..179707068,4	MCF-7	breast:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1127615	0.88[ASN][1000 genomes]
rs11743530	0.82[ASN][1000 genomes]
rs11743623	0.82[ASN][1000 genomes]
rs11955394	0.88[ASN][1000 genomes]
rs13161805	0.80[AMR][1000 genomes]
rs13164011	0.88[ASN][1000 genomes]
rs13190345	0.82[ASN][1000 genomes]
rs17080153	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs33998980	0.88[ASN][1000 genomes]
rs35625998	0.80[AMR][1000 genomes]
rs35690024	0.80[AMR][1000 genomes]
rs35809530	0.80[AMR][1000 genomes]
rs59028042	0.80[AMR][1000 genomes]
rs59666856	0.80[AMR][1000 genomes]
rs61225768	0.80[AMR][1000 genomes]
rs6872534	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6885325	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7702792	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7715132	0.80[AMR][1000 genomes]
rs7735336	0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948909	chr5:179249099-179772640	Weak transcription Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	175 gene(s)	inside rSNPs	diseases
2	nsv1033706	chr5:179402769-179806356	Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
3	esv2758032	chr5:179534477-179729944	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	esv2759398	chr5:179534477-179729944	Weak transcription Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	nsv1023914	chr5:179649883-180040672	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
6	nsv537983	chr5:179649883-180040672	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:179653600-179714600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr5:179655400-179712600	ZNF genes & repeats	Liver	Liver
3	chr5:179660800-179706800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr5:179670200-179712800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr5:179691200-179706200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr5:179692800-179718000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr5:179693800-179709600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr5:179694800-179717600	Weak transcription	HUVEC	blood vessel
9	chr5:179695800-179706200	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr5:179696400-179714800	Weak transcription	Fetal Brain Male	brain
11	chr5:179697600-179710800	Strong transcription	Placenta	Placenta
12	chr5:179698400-179710200	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr5:179698400-179710400	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
14	chr5:179699000-179707000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr5:179699000-179714600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr5:179699200-179707400	Strong transcription	Skeletal Muscle Male	skeletal muscle
17	chr5:179699600-179710600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
18	chr5:179699800-179707200	Strong transcription	Fetal Muscle Trunk	muscle
19	chr5:179699800-179707600	ZNF genes & repeats	Fetal Intestine Small	intestine
20	chr5:179699800-179711400	Strong transcription	Primary T cells fromperipheralblood	blood
21	chr5:179699800-179712600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr5:179700000-179706800	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr5:179700000-179711600	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
24	chr5:179700200-179710800	Strong transcription	Skeletal Muscle Female	skeletal muscle
25	chr5:179700600-179712600	Strong transcription	Primary T cells from cord blood	blood
26	chr5:179700800-179711400	Strong transcription	Fetal Thymus	thymus
27	chr5:179701000-179707200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr5:179701200-179710800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr5:179701400-179707600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr5:179701400-179710600	Strong transcription	Fetal Intestine Large	intestine
31	chr5:179701600-179707200	Strong transcription	HUES48 Cell Line	embryonic stem cell
32	chr5:179701600-179707800	Strong transcription	HUES64 Cell Line	embryonic stem cell
33	chr5:179701600-179708800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr5:179701600-179710600	Strong transcription	Primary B cells from peripheral blood	blood
35	chr5:179701800-179710600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
36	chr5:179702200-179709600	Strong transcription	Left Ventricle	heart
37	chr5:179702400-179709000	Weak transcription	Fetal Heart	heart
38	chr5:179702400-179709400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr5:179702400-179714000	Strong transcription	Thymus	Thymus
40	chr5:179702600-179709600	Strong transcription	Fetal Stomach	stomach
41	chr5:179702600-179712200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr5:179702800-179707200	Strong transcription	Adipose Nuclei	Adipose
43	chr5:179702800-179708200	Strong transcription	Rectal Mucosa Donor 31	rectum
44	chr5:179702800-179710600	Strong transcription	Hela-S3	cervix
45	chr5:179703000-179706800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr5:179703000-179708400	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr5:179703000-179711400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
48	chr5:179703000-179717400	Weak transcription	NHLF	lung
49	chr5:179703400-179714000	Strong transcription	Sigmoid Colon	Sigmoid Colon
50	chr5:179703600-179707200	Strong transcription	Rectal Smooth Muscle	rectum

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