Variant report

Variant	rs7859870
Chromosome Location	chr9:118367195-118367196
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs2188048	0.82[ASN][1000 genomes]
rs2188066	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34976516	0.84[ASN][1000 genomes]
rs4979548	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6478177	0.84[ASN][1000 genomes]
rs6478178	0.84[ASN][1000 genomes]
rs6478179	0.84[ASN][1000 genomes]
rs689566	0.91[ASN][1000 genomes]
rs7470135	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7848629	0.84[ASN][1000 genomes]
rs7849453	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7860046	0.82[ASN][1000 genomes]
rs7860907	0.82[ASN][1000 genomes]
rs7864886	0.82[ASN][1000 genomes]
rs7865558	0.82[ASN][1000 genomes]
rs7868506	0.82[ASN][1000 genomes]
rs7869139	0.82[ASN][1000 genomes]
rs9299225	0.82[ASN][1000 genomes]
rs9299226	0.82[ASN][1000 genomes]
rs9299228	0.84[ASN][1000 genomes]
rs9408870	0.82[ASN][1000 genomes]
rs9409166	0.81[ASN][1000 genomes]
rs9919008	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv615251	chr9:117975864-118514444	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats 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	11 gene(s)	inside rSNPs	diseases
2	nsv948346	chr9:118107565-118718197	Enhancers Bivalent Enhancer Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1046948	chr9:118185587-118926891	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv916622	chr9:118206309-118952390	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
5	nsv540207	chr9:118206311-118920304	Enhancers Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
6	nsv491661	chr9:118206312-118802177	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
7	nsv831698	chr9:118284259-118446456	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv1047164	chr9:118286742-118456851	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7859870	DEC1	cis	cerebellum	SCAN

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:118358400-118377800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:118360600-118367200	Weak transcription	HSMM	muscle
3	chr9:118360600-118367400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr9:118361800-118367200	Weak transcription	NHLF	lung
5	chr9:118362000-118371600	Weak transcription	HSMMtube	muscle
6	chr9:118362200-118367400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr9:118365000-118367400	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr9:118365000-118368600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr9:118366200-118369400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr9:118366400-118368200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr9:118366600-118368000	Enhancers	Muscle Satellite Cultured Cells	--
12	chr9:118366600-118368600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr9:118366600-118369600	Enhancers	NHDF-Ad	bronchial
14	chr9:118366800-118368000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr9:118366800-118368000	Enhancers	Hela-S3	cervix
16	chr9:118366800-118368200	Enhancers	NHEK	skin
17	chr9:118366800-118369400	Enhancers	HMEC	breast
18	chr9:118367000-118367200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr9:118367000-118367800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr9:118367000-118368000	Enhancers	NH-A	brain
21	chr9:118367000-118368200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr9:118367000-118368200	Enhancers	Osteobl	bone

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