Variant report

Variant	rs1981160
Chromosome Location	chr9:73562723-73562724
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10780983	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10780984	0.85[ASN][1000 genomes]
rs10868929	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10868931	0.87[ASN][1000 genomes]
rs11142648	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11142658	0.87[ASN][1000 genomes]
rs11791907	0.84[ASN][1000 genomes]
rs1337017	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1337022	0.87[ASN][1000 genomes]
rs1337023	0.85[ASN][1000 genomes]
rs1415219	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs1981161	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1981162	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2992995	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2993005	0.90[ASN][1000 genomes]
rs3010419	0.86[JPT][hapmap]
rs73465065	0.83[ASN][1000 genomes]
rs7849064	0.81[ASN][1000 genomes]
rs7856482	0.81[JPT][hapmap]
rs7865659	0.87[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	nsv893441	chr9:73486034-73594114	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv430072	chr9:73509677-73640530	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1981160	FXN	cis	parietal	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:73561400-73563800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr9:73561800-73562800	Enhancers	Osteobl	bone
3	chr9:73561800-73563000	Enhancers	Muscle Satellite Cultured Cells	--
4	chr9:73561800-73563800	Enhancers	NHEK	skin
5	chr9:73562000-73562800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr9:73562000-73563600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr9:73562000-73563800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr9:73562000-73563800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr9:73562200-73562800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr9:73562200-73562800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr9:73562200-73563000	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr9:73562200-73563600	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr9:73562200-73564000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr9:73562400-73562800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr9:73562400-73562800	Enhancers	HUES6 Cell Line	embryonic stem cell
16	chr9:73562400-73562800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr9:73562400-73563000	Enhancers	iPS-20b Cell Line	embryonic stem cell
18	chr9:73562400-73563000	Enhancers	Placenta Amnion	Placenta Amnion
19	chr9:73562400-73563000	Weak transcription	NH-A	brain
20	chr9:73562400-73563800	Enhancers	iPS-15b Cell Line	embryonic stem cell
21	chr9:73562400-73566800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr9:73562600-73562800	Enhancers	HSMMtube	muscle
23	chr9:73562600-73563000	Enhancers	HUES48 Cell Line	embryonic stem cell
24	chr9:73562600-73563600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr9:73562600-73563800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr9:73562600-73563800	Enhancers	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links