Variant report

Variant	rs73801872
Chromosome Location	chr5:167731393-167731394
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:167716372..167720995-chr5:167731384..167738008,7	MCF-7	breast:
2	chr5:167726332..167731754-chr5:167740281..167744760,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000113645	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10066443	1.00[EUR][1000 genomes]
rs17051827	1.00[EUR][1000 genomes]
rs17070053	1.00[EUR][1000 genomes]
rs17070064	1.00[EUR][1000 genomes]
rs17070070	1.00[EUR][1000 genomes]
rs17070086	1.00[EUR][1000 genomes]
rs17070088	1.00[EUR][1000 genomes]
rs2015380	1.00[EUR][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	nsv534607	chr5:167661667-168454396	Active TSS Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv949154	chr5:167691208-168323234	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv5119	chr5:167724987-167766076	Enhancers Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:167724200-167731600	Weak transcription	Liver	Liver
2	chr5:167724200-167733200	Weak transcription	Placenta	Placenta
3	chr5:167727000-167737600	Weak transcription	Brain Anterior Caudate	brain
4	chr5:167727200-167737800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr5:167727600-167742600	Weak transcription	Fetal Brain Female	brain
6	chr5:167728000-167733000	Enhancers	Fetal Intestine Small	intestine
7	chr5:167728000-167734800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr5:167728000-167737800	Weak transcription	Brain Cingulate Gyrus	brain
9	chr5:167728800-167731600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr5:167729200-167734200	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr5:167729400-167732400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr5:167729400-167732400	Weak transcription	Fetal Kidney	kidney
13	chr5:167729400-167732600	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr5:167729400-167736000	Weak transcription	Esophagus	oesophagus
15	chr5:167729400-167738000	Weak transcription	Colonic Mucosa	Colon
16	chr5:167729400-167740800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr5:167729400-167741000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr5:167729400-167741000	Weak transcription	Fetal Lung	lung
19	chr5:167729600-167732400	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr5:167730000-167731400	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr5:167730000-167732600	Weak transcription	Cortex derived primary cultured neurospheres	brain
22	chr5:167730200-167732600	Enhancers	Pancreas	Pancrea
23	chr5:167730400-167732800	Enhancers	Fetal Intestine Large	intestine
24	chr5:167730400-167733800	Weak transcription	NHEK	skin
25	chr5:167730400-167740800	Weak transcription	HMEC	breast
26	chr5:167730600-167731800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr5:167730600-167736000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
28	chr5:167730600-167738000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr5:167730800-167731600	Enhancers	GM12878-XiMat	blood
30	chr5:167730800-167732800	Enhancers	Small Intestine	intestine
31	chr5:167730800-167735400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr5:167730800-167740800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr5:167731000-167731400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr5:167731000-167731600	Genic enhancers	A549	lung
35	chr5:167731000-167732200	Weak transcription	HepG2	liver
36	chr5:167731000-167736000	Weak transcription	Gastric	stomach
37	chr5:167731000-167736400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr5:167731000-167739200	Weak transcription	Hela-S3	cervix
39	chr5:167731000-167741600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr5:167731200-167731400	Weak transcription	Stomach Mucosa	stomach
41	chr5:167731200-167732200	Weak transcription	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links