Variant report

Variant	rs712560
Chromosome Location	chr5:106879808-106879809
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	chr5:106879004..106882642-chr5:106901897..106905418,3	MCF-7	breast:
2	chr5:106878075..106880996-chr5:106890627..106894007,3	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10053318	0.94[AFR][1000 genomes]
rs11950725	0.95[ASN][1000 genomes]
rs11957374	0.95[ASN][1000 genomes]
rs163888	0.95[ASN][1000 genomes]
rs163895	0.81[ASN][1000 genomes]
rs17160159	0.95[ASN][1000 genomes]
rs17414033	0.81[ASN][1000 genomes]
rs55837064	1.00[ASN][1000 genomes]
rs56195302	0.95[ASN][1000 genomes]
rs6879279	0.81[ASN][1000 genomes]
rs6882355	1.00[ASN][1000 genomes]
rs6883713	1.00[ASN][1000 genomes]
rs6884705	1.00[ASN][1000 genomes]
rs72789671	1.00[ASN][1000 genomes]
rs72791831	0.95[ASN][1000 genomes]
rs72791834	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	nsv1034276	chr5:106461538-106944163	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv537851	chr5:106461538-106944163	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	esv34018	chr5:106720912-107110506	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106842400-106880000	Weak transcription	Gastric	stomach
2	chr5:106865400-106880000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr5:106873600-106882600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr5:106875000-106882800	Weak transcription	Brain Angular Gyrus	brain
5	chr5:106875000-106885200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr5:106877200-106880200	Enhancers	Colon Smooth Muscle	Colon
7	chr5:106877400-106883400	Enhancers	Fetal Heart	heart
8	chr5:106877600-106880400	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr5:106877800-106880400	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr5:106877800-106880800	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr5:106877800-106881400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr5:106878000-106880200	Enhancers	Skeletal Muscle Female	skeletal muscle
13	chr5:106878000-106880800	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr5:106878200-106880000	Weak transcription	Rectal Smooth Muscle	rectum
15	chr5:106878200-106880200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr5:106878200-106880400	Enhancers	Pancreas	Pancrea
17	chr5:106878200-106883200	Enhancers	Fetal Lung	lung
18	chr5:106878400-106882600	Weak transcription	Dnd41	blood
19	chr5:106878600-106880000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr5:106878600-106881600	Enhancers	HUES48 Cell Line	embryonic stem cell
21	chr5:106878600-106881600	Enhancers	Stomach Mucosa	stomach
22	chr5:106878600-106882000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr5:106878800-106880800	Enhancers	ES-I3 Cell Line	embryonic stem cell
24	chr5:106878800-106891600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr5:106879000-106880200	Enhancers	iPS-15b Cell Line	embryonic stem cell
26	chr5:106879000-106880200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr5:106879000-106880200	Weak transcription	Fetal Kidney	kidney
28	chr5:106879000-106880200	Enhancers	Hela-S3	cervix
29	chr5:106879000-106882800	Enhancers	Breast Myoepithelial Primary Cells	Breast
30	chr5:106879000-106882800	Weak transcription	Thymus	Thymus
31	chr5:106879000-106884400	Weak transcription	HSMMtube	muscle
32	chr5:106879000-106884400	Weak transcription	NHDF-Ad	bronchial
33	chr5:106879000-106893000	Weak transcription	Psoas Muscle	Psoas
34	chr5:106879000-106899200	Weak transcription	Fetal Stomach	stomach
35	chr5:106879200-106880400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr5:106879200-106884200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr5:106879400-106880200	Enhancers	HUES6 Cell Line	embryonic stem cell
38	chr5:106879400-106880200	Enhancers	Ovary	ovary
39	chr5:106879400-106880400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr5:106879400-106880400	Weak transcription	Stomach Smooth Muscle	stomach
41	chr5:106879400-106881400	Weak transcription	Pancreatic Islets	Pancreatic Islet
42	chr5:106879400-106884400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr5:106879400-106888200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr5:106879400-106888800	Weak transcription	HMEC	breast
45	chr5:106879600-106880000	Enhancers	Esophagus	oesophagus
46	chr5:106879600-106880000	Enhancers	Right Atrium	heart
47	chr5:106879600-106880200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
48	chr5:106879600-106880200	Enhancers	Left Ventricle	heart
49	chr5:106879600-106880400	Enhancers	H1 Cell Line	embryonic stem cell
50	chr5:106879600-106880400	Enhancers	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links