Variant report

Variant	rs163895
Chromosome Location	chr5:106879502-106879503
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:106879004..106882642-chr5:106901897..106905418,3	MCF-7	breast:
2	chr5:106878075..106880996-chr5:106890627..106894007,3	MCF-7	breast:
3	chr5:106867857..106870035-chr5:106875652..106879640,3	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11957374	0.88[JPT][hapmap]
rs17160159	0.88[JPT][hapmap]
rs17414033	0.82[JPT][hapmap]
rs1966892	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs1966893	1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs352605	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs388016	1.00[CHB][hapmap]
rs395561	1.00[CHB][hapmap]
rs446774	1.00[CHB][hapmap]
rs55837064	0.81[ASN][1000 genomes]
rs6879279	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6882355	0.88[JPT][hapmap];0.81[ASN][1000 genomes]
rs6883713	1.00[CEU][hapmap];0.88[JPT][hapmap];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6884705	1.00[CEU][hapmap];0.83[CHD][hapmap];0.88[JPT][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs712560	0.81[ASN][1000 genomes]
rs72789671	0.81[ASN][1000 genomes]
rs7443170	1.00[CHB][hapmap];0.85[JPT][hapmap];0.96[ASN][1000 genomes]
rs848827	1.00[CHB][hapmap]

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:65 , 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	chr5:106867200-106879800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr5:106873600-106882600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr5:106875000-106882800	Weak transcription	Brain Angular Gyrus	brain
6	chr5:106875000-106885200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr5:106875800-106879600	Weak transcription	Esophagus	oesophagus
8	chr5:106875800-106879600	Weak transcription	Left Ventricle	heart
9	chr5:106876000-106879600	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr5:106876000-106879600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr5:106877000-106879800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr5:106877200-106880200	Enhancers	Colon Smooth Muscle	Colon
13	chr5:106877400-106883400	Enhancers	Fetal Heart	heart
14	chr5:106877600-106880400	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr5:106877800-106880400	Enhancers	iPS-18 Cell Line	embryonic stem cell
16	chr5:106877800-106880800	Enhancers	iPS-20b Cell Line	embryonic stem cell
17	chr5:106877800-106881400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr5:106878000-106879800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
19	chr5:106878000-106879800	Enhancers	NHLF	lung
20	chr5:106878000-106880200	Enhancers	Skeletal Muscle Female	skeletal muscle
21	chr5:106878000-106880800	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr5:106878200-106880000	Weak transcription	Rectal Smooth Muscle	rectum
23	chr5:106878200-106880200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr5:106878200-106880400	Enhancers	Pancreas	Pancrea
25	chr5:106878200-106883200	Enhancers	Fetal Lung	lung
26	chr5:106878400-106879800	Enhancers	Duodenum Smooth Muscle	Duodenum
27	chr5:106878400-106882600	Weak transcription	Dnd41	blood
28	chr5:106878600-106879600	Weak transcription	Right Ventricle	heart
29	chr5:106878600-106879800	Enhancers	Liver	Liver
30	chr5:106878600-106880000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr5:106878600-106881600	Enhancers	HUES48 Cell Line	embryonic stem cell
32	chr5:106878600-106881600	Enhancers	Stomach Mucosa	stomach
33	chr5:106878600-106882000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr5:106878800-106879600	Weak transcription	Right Atrium	heart
35	chr5:106878800-106880800	Enhancers	ES-I3 Cell Line	embryonic stem cell
36	chr5:106878800-106891600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr5:106879000-106879600	Enhancers	Muscle Satellite Cultured Cells	--
38	chr5:106879000-106879600	Weak transcription	Aorta	Aorta
39	chr5:106879000-106879800	Enhancers	Placenta Amnion	Placenta Amnion
40	chr5:106879000-106879800	Flanking Active TSS	A549	lung
41	chr5:106879000-106879800	Enhancers	HSMM	muscle
42	chr5:106879000-106880200	Enhancers	iPS-15b Cell Line	embryonic stem cell
43	chr5:106879000-106880200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr5:106879000-106880200	Weak transcription	Fetal Kidney	kidney
45	chr5:106879000-106880200	Enhancers	Hela-S3	cervix
46	chr5:106879000-106882800	Enhancers	Breast Myoepithelial Primary Cells	Breast
47	chr5:106879000-106882800	Weak transcription	Thymus	Thymus
48	chr5:106879000-106884400	Weak transcription	HSMMtube	muscle
49	chr5:106879000-106884400	Weak transcription	NHDF-Ad	bronchial
50	chr5:106879000-106893000	Weak transcription	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links