Variant report

Variant	rs164846
Chromosome Location	chr5:106898120-106898121
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	chr5:106897383..106899873-chr5:107006144..107010279,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000184349	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs164844	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs164848	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs164972	0.88[ASN][1000 genomes]
rs168501	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2161514	0.81[ASN][1000 genomes]
rs2457867	0.80[ASN][1000 genomes]
rs2484103	0.85[ASN][1000 genomes]
rs341274	0.81[ASN][1000 genomes]
rs342604	0.81[ASN][1000 genomes]
rs354182	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs37443	0.82[ASN][1000 genomes]
rs445747	0.82[ASN][1000 genomes]
rs555989	0.81[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:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106879000-106899200	Weak transcription	Fetal Stomach	stomach
2	chr5:106881600-106899600	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr5:106887200-106899400	Weak transcription	Fetal Lung	lung
4	chr5:106887200-106906800	Weak transcription	Right Ventricle	heart
5	chr5:106889400-106903000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr5:106890200-106900800	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr5:106891000-106899800	Weak transcription	Aorta	Aorta
8	chr5:106892000-106901800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr5:106892800-106899800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr5:106893200-106901800	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr5:106893400-106901600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr5:106893600-106898200	Enhancers	A549	lung
13	chr5:106893800-106906000	Weak transcription	NHDF-Ad	bronchial
14	chr5:106894000-106902000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr5:106894800-106900000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr5:106895000-106899200	Weak transcription	Left Ventricle	heart
17	chr5:106895000-106899400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr5:106895000-106899600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr5:106895000-106901600	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr5:106895000-106901600	Weak transcription	HMEC	breast
21	chr5:106895000-106901800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr5:106895000-106906800	Weak transcription	Lung	lung
23	chr5:106895200-106899400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr5:106895200-106899600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr5:106895200-106899600	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr5:106895400-106899400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr5:106895600-106899600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr5:106895600-106899600	Weak transcription	HUES64 Cell Line	embryonic stem cell
29	chr5:106895800-106899600	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr5:106896600-106899400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr5:106896600-106899600	Weak transcription	H1 Cell Line	embryonic stem cell
32	chr5:106896600-106899800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr5:106897000-106899600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr5:106897000-106899800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr5:106897000-106900600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr5:106897200-106899800	Weak transcription	Fetal Brain Male	brain
37	chr5:106897200-106900000	Weak transcription	NHLF	lung
38	chr5:106897600-106898200	Enhancers	iPS-20b Cell Line	embryonic stem cell
39	chr5:106897800-106898200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr5:106897800-106899600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
41	chr5:106898000-106899400	Weak transcription	Fetal Heart	heart
42	chr5:106898000-106899600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr5:106898000-106899600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links