Variant report

Variant	rs58577202
Chromosome Location	chr5:90370883-90370884
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:90370618..90372273-chr5:90676246..90679128,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000113369	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs55908755	0.84[AFR][1000 genomes]
rs56072107	1.00[AMR][1000 genomes]
rs56380505	1.00[AMR][1000 genomes]
rs57330847	1.00[AMR][1000 genomes]
rs57830245	0.84[AFR][1000 genomes]
rs57931656	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58617853	0.84[AFR][1000 genomes]
rs58675622	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58911687	0.84[AFR][1000 genomes]
rs59760061	1.00[AMR][1000 genomes]
rs60272312	0.84[AFR][1000 genomes]
rs61195095	1.00[AMR][1000 genomes]
rs6888277	0.84[AFR][1000 genomes]
rs73771136	0.84[AFR][1000 genomes]
rs73771155	0.84[AFR][1000 genomes]
rs73771164	0.91[AFR][1000 genomes]
rs73771169	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73771171	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73771174	1.00[AMR][1000 genomes]
rs73771177	1.00[AMR][1000 genomes]
rs73771178	1.00[AMR][1000 genomes]
rs73771179	1.00[AMR][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	nsv529544	chr5:89523963-90412409	Weak transcription Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv1024813	chr5:90321535-90870739	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
3	nsv537806	chr5:90321535-90870739	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:90341200-90376600	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr5:90358400-90391000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr5:90358600-90375400	Weak transcription	Brain Anterior Caudate	brain
4	chr5:90360200-90386400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr5:90366600-90386600	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr5:90367000-90378000	Weak transcription	Fetal Brain Female	brain
7	chr5:90367200-90377600	Weak transcription	K562	blood
8	chr5:90368200-90371000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr5:90368200-90372600	Enhancers	Osteobl	bone
10	chr5:90368400-90371000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr5:90368400-90372200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr5:90368400-90372400	Enhancers	NHDF-Ad	bronchial
13	chr5:90368400-90372600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr5:90368400-90374400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr5:90369000-90373000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr5:90369000-90374400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr5:90369400-90373000	Weak transcription	NHEK	skin
18	chr5:90369400-90374400	Weak transcription	Aorta	Aorta
19	chr5:90369400-90374400	Weak transcription	Colon Smooth Muscle	Colon
20	chr5:90369400-90374400	Weak transcription	Fetal Kidney	kidney
21	chr5:90369400-90374600	Weak transcription	Hela-S3	cervix
22	chr5:90369400-90386200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr5:90369600-90371200	Weak transcription	NH-A	brain
24	chr5:90369600-90373000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr5:90369600-90373000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr5:90369600-90373400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr5:90369600-90386000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
28	chr5:90370200-90374200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr5:90370400-90372600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr5:90370600-90373000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr5:90370600-90397600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr5:90370800-90371000	Enhancers	A549	lung
33	chr5:90370800-90371800	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr5:90370800-90372400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links