Variant report

Variant	rs17777413
Chromosome Location	chr5:58364206-58364207
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	chr5:58363195..58365401-chr5:58365586..58367971,2	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10940640	0.91[CEU][hapmap];0.95[EUR][1000 genomes]
rs1353747	0.87[EUR][1000 genomes]
rs1498608	0.84[EUR][1000 genomes]
rs1553113	0.87[EUR][1000 genomes]
rs16889126	0.84[EUR][1000 genomes]
rs2968010	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2830363	chr5:57893949-58555491	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv830312	chr5:58191579-58382226	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv830313	chr5:58273724-58421098	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv1032308	chr5:58312468-58371239	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58336200-58375600	Weak transcription	Left Ventricle	heart
2	chr5:58339000-58365200	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr5:58358200-58365000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr5:58359400-58365200	Weak transcription	Rectal Smooth Muscle	rectum
5	chr5:58359600-58364800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr5:58360200-58366000	Enhancers	HSMM	muscle
7	chr5:58360400-58365000	Weak transcription	Colon Smooth Muscle	Colon
8	chr5:58360600-58373800	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr5:58360800-58367200	Weak transcription	HepG2	liver
10	chr5:58361000-58365800	Enhancers	HSMMtube	muscle
11	chr5:58362200-58366000	Enhancers	Muscle Satellite Cultured Cells	--
12	chr5:58362400-58368200	Weak transcription	Psoas Muscle	Psoas
13	chr5:58362600-58364400	Weak transcription	HMEC	breast
14	chr5:58362600-58365000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr5:58362800-58364800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr5:58362800-58365000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr5:58362800-58365000	Weak transcription	NH-A	brain
18	chr5:58363400-58364400	Transcr. at gene 5' and 3'	A549	lung
19	chr5:58364000-58364400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr5:58364000-58365000	Strong transcription	Hela-S3	cervix
21	chr5:58364200-58364400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr5:58364200-58364400	Enhancers	NHDF-Ad	bronchial
23	chr5:58364200-58364600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr5:58364200-58365400	Enhancers	NHLF	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links