Variant report

Variant	rs6886437
Chromosome Location	chr5:179006305-179006306
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:179004969..179007855-chr5:179049122..179050815,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169045	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs28501545	0.91[AFR][1000 genomes]
rs4515257	0.81[AFR][1000 genomes]
rs4524469	1.00[YRI][hapmap]
rs4700811	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs4700815	0.91[AFR][1000 genomes]
rs4700816	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs4701138	1.00[AFR][1000 genomes]
rs6422328	0.82[AFR][1000 genomes]
rs6422329	0.91[AFR][1000 genomes]
rs6422330	0.91[AFR][1000 genomes]
rs7443003	1.00[YRI][hapmap]
rs7705990	1.00[YRI][hapmap]
rs7710728	1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7734940	0.82[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817413	chr5:178415365-179020558	Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	esv2758031	chr5:178661266-179037529	ZNF genes & repeats Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
3	esv2759397	chr5:178661266-179037529	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
4	esv2829850	chr5:178828854-179060995	Strong transcription Active TSS Enhancers Genic enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	122 gene(s)	inside rSNPs	diseases
5	nsv949554	chr5:178832325-179309513	Transcr. at gene 5' and 3' Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	312 gene(s)	inside rSNPs	diseases
6	nsv883269	chr5:178951106-179031595	Strong transcription Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
7	nsv883270	chr5:178951106-179350387	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	312 gene(s)	inside rSNPs	diseases
8	nsv1015477	chr5:178954409-179016804	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
9	nsv883271	chr5:178955046-179031595	Strong transcription Active TSS Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
10	nsv883272	chr5:178961872-179031595	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
11	nsv1028236	chr5:178962087-179019981	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:178987200-179040800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr5:178987400-179013200	Strong transcription	Fetal Stomach	stomach
3	chr5:178987400-179019800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr5:178987600-179045600	Strong transcription	Fetal Intestine Small	intestine
5	chr5:178987800-179006600	Strong transcription	HUES64 Cell Line	embryonic stem cell
6	chr5:178987800-179006800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr5:178987800-179009600	Strong transcription	Primary monocytes fromperipheralblood	blood
8	chr5:178987800-179012200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr5:178987800-179017000	Strong transcription	Osteobl	bone
10	chr5:178987800-179031000	Strong transcription	Fetal Muscle Leg	muscle
11	chr5:178987800-179045600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
12	chr5:178988000-179006800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr5:178988000-179009600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr5:178988400-179006600	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr5:178988400-179010200	Strong transcription	HUES48 Cell Line	embryonic stem cell
16	chr5:178989000-179006600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr5:178989000-179010200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
18	chr5:178989200-179006600	Strong transcription	Cortex derived primary cultured neurospheres	brain
19	chr5:178989400-179006600	Strong transcription	Primary B cells from peripheral blood	blood
20	chr5:178989600-179006400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr5:178991200-179016600	Weak transcription	Stomach Mucosa	stomach
22	chr5:178996200-179006600	Strong transcription	Adipose Nuclei	Adipose
23	chr5:178996200-179022600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr5:178996600-179013200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr5:178996800-179034000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
26	chr5:178997600-179012800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr5:178997600-179020200	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr5:178998400-179007600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr5:178998400-179012800	Weak transcription	HSMM	muscle
30	chr5:178999400-179012800	Weak transcription	HMEC	breast
31	chr5:178999800-179007600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
32	chr5:178999800-179007600	Weak transcription	Right Ventricle	heart
33	chr5:178999800-179013000	Weak transcription	Brain Substantia Nigra	brain
34	chr5:178999800-179013800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr5:178999800-179034800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr5:179000000-179008200	Weak transcription	Colon Smooth Muscle	Colon
37	chr5:179000000-179013000	Weak transcription	Psoas Muscle	Psoas
38	chr5:179000000-179034200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr5:179000400-179022800	Weak transcription	Fetal Heart	heart
40	chr5:179001000-179006600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr5:179001400-179008200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr5:179002000-179009600	Strong transcription	H1 Cell Line	embryonic stem cell
43	chr5:179002200-179006600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
44	chr5:179002200-179006600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr5:179002200-179008600	Strong transcription	NH-A	brain
46	chr5:179002200-179009800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr5:179002200-179010000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr5:179002200-179017000	Strong transcription	Brain Germinal Matrix	brain
49	chr5:179002200-179022800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr5:179002200-179045600	Strong transcription	Fetal Intestine Large	intestine

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