Variant report

Variant	rs7578449
Chromosome Location	chr2:30594615-30594616
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	chr2:30574396..30577189-chr2:30593038..30595856,2	K562	blood:
2	chr2:30453443..30455973-chr2:30592858..30597283,4	K562	blood:

Variant related genes	Relation type
ENSG00000213626	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11885422	0.80[AMR][1000 genomes]
rs12714305	0.81[AMR][1000 genomes]
rs12988612	0.88[CEU][hapmap];1.00[GIH][hapmap];0.88[TSI][hapmap];0.89[EUR][1000 genomes]
rs34113782	0.81[AMR][1000 genomes]
rs56082933	0.89[EUR][1000 genomes]
rs56185028	0.89[EUR][1000 genomes]
rs6744525	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7576009	0.82[EUR][1000 genomes]
rs7579095	0.83[EUR][1000 genomes]
rs7603554	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7608507	0.85[YRI][hapmap];0.87[AFR][1000 genomes];0.82[AMR][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	nsv533886	chr2:30130019-31068764	ZNF genes & repeats Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv833648	chr2:30505882-30696275	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv873769	chr2:30585638-30625264	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv1010639	chr2:30593100-30598411	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7578449	PREB	cis	parietal	SCAN

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:30585600-30605800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr2:30586200-30594800	Weak transcription	Ovary	ovary
3	chr2:30588400-30597800	Enhancers	NHDF-Ad	bronchial
4	chr2:30589600-30594800	Weak transcription	Placenta	Placenta
5	chr2:30589800-30594800	Weak transcription	Adipose Nuclei	Adipose
6	chr2:30589800-30594800	Weak transcription	Left Ventricle	heart
7	chr2:30589800-30595800	Weak transcription	Stomach Smooth Muscle	stomach
8	chr2:30591400-30594800	Weak transcription	Right Atrium	heart
9	chr2:30591600-30594800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr2:30591600-30594800	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr2:30591600-30595000	Weak transcription	HSMMtube	muscle
12	chr2:30591600-30595200	Weak transcription	Aorta	Aorta
13	chr2:30591600-30596600	Weak transcription	NH-A	brain
14	chr2:30591600-30596800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr2:30591600-30596800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr2:30591600-30597000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr2:30591800-30594800	Weak transcription	Fetal Kidney	kidney
18	chr2:30592200-30594800	Weak transcription	NHLF	lung
19	chr2:30592200-30597400	Weak transcription	Spleen	Spleen
20	chr2:30592800-30594800	Weak transcription	Fetal Lung	lung
21	chr2:30593000-30601000	Weak transcription	Pancreas	Pancrea
22	chr2:30594000-30595000	Enhancers	Primary T helper cells PMA-I stimulated	--
23	chr2:30594200-30596800	Weak transcription	Fetal Thymus	thymus
24	chr2:30594200-30597200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr2:30594400-30597600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr2:30594600-30595400	Enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr2:30594600-30595400	Enhancers	Fetal Heart	heart
28	chr2:30594600-30597600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr2:30594600-30597600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr2:30594600-30597600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr2:30594600-30597600	Enhancers	Muscle Satellite Cultured Cells	--
32	chr2:30594600-30597600	Enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links