Variant report

Variant	rs13188578
Chromosome Location	chr5:54043954-54043955
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:53812268..53814960-chr5:54041334..54044388,3	MCF-7	breast:
2	chr5:54039960..54041992-chr5:54042143..54044677,2	K562	blood:
3	chr5:54037843..54041857-chr5:54043536..54048349,6	K562	blood:
4	chr5:54037020..54040567-chr5:54043537..54047094,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178996	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10051951	0.96[ASN][1000 genomes]
rs10066710	0.96[ASN][1000 genomes]
rs10068286	0.96[ASN][1000 genomes]
rs10077272	0.81[ASN][1000 genomes]
rs10078278	0.90[ASN][1000 genomes]
rs10471398	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13168186	0.87[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs13170741	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13180747	0.95[ASN][1000 genomes]
rs13187838	0.95[ASN][1000 genomes]
rs13188964	0.95[ASN][1000 genomes]
rs13189693	0.92[ASN][1000 genomes]
rs35580743	0.99[ASN][1000 genomes]
rs9292069	0.92[ASN][1000 genomes]
rs9292070	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880717	chr5:54025701-54106378	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	esv3378305	chr5:54040695-54045193	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:54036800-54044800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr5:54040200-54044600	Weak transcription	Esophagus	oesophagus
3	chr5:54040600-54044000	Enhancers	K562	blood
4	chr5:54040600-54044200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr5:54040600-54044600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr5:54040600-54047400	Weak transcription	Right Atrium	heart
7	chr5:54040600-54050000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr5:54040600-54052400	Weak transcription	Brain Hippocampus Middle	brain
9	chr5:54041200-54051800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr5:54041400-54046800	Weak transcription	Primary B cells from cord blood	blood
11	chr5:54041400-54048600	Weak transcription	HSMMtube	muscle
12	chr5:54041600-54048800	Weak transcription	NHLF	lung
13	chr5:54041800-54048800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr5:54041800-54048800	Weak transcription	Fetal Heart	heart
15	chr5:54041800-54052000	Weak transcription	Placenta	Placenta
16	chr5:54041800-54052200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr5:54042000-54044600	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr5:54042000-54047400	Weak transcription	NHDF-Ad	bronchial
19	chr5:54042600-54044600	Weak transcription	Spleen	Spleen
20	chr5:54042600-54053800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr5:54043000-54044600	Weak transcription	Pancreas	Pancrea

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