Variant report

Variant	rs62575093
Chromosome Location	chr9:108209438-108209439
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:108207677..108209988-chr9:108545420..108547936,2	K562	blood:

Extended variants
information (count: 63 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1018847	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10491808	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12115847	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17250623	0.85[EUR][1000 genomes]
rs17251166	0.83[EUR][1000 genomes]
rs17308339	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17309137	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17309319	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17309806	0.88[EUR][1000 genomes]
rs2068267	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2771028	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2771037	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2771039	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2771044	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2771045	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2812298	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2812299	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2812300	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2812301	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2812302	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2812304	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2812306	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2812309	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2812311	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2812312	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34787999	0.88[EUR][1000 genomes]
rs41277785	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4742649	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4742651	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4742653	0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4742654	0.82[EUR][1000 genomes]
rs4742946	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4742949	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4742950	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4742952	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4742953	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4742954	0.89[EUR][1000 genomes]
rs4742955	0.86[EUR][1000 genomes]
rs4742956	0.88[EUR][1000 genomes]
rs57432946	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs57597571	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59474306	0.83[EUR][1000 genomes]
rs60126815	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62575095	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62575101	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62575102	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62575104	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62575105	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62575106	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62575112	0.82[EUR][1000 genomes]
rs62575114	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62575144	0.87[EUR][1000 genomes]
rs62575145	0.88[EUR][1000 genomes]
rs7024265	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7035783	0.87[EUR][1000 genomes]
rs7037972	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7851777	0.85[EUR][1000 genomes]
rs7872377	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9408799	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9409062	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][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	nsv1037750	chr9:108027692-108251733	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1053973	chr9:108199177-108300186	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv615115	chr9:108205262-108298183	Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62575093	FSD1L	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:108195800-108209800	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr9:108201000-108209600	Weak transcription	Primary monocytes fromperipheralblood	blood
3	chr9:108201600-108209800	Weak transcription	NHLF	lung
4	chr9:108204200-108209800	Weak transcription	Right Ventricle	heart
5	chr9:108204600-108209800	Weak transcription	Liver	Liver
6	chr9:108204600-108209800	Weak transcription	Fetal Heart	heart
7	chr9:108206000-108209800	Weak transcription	Psoas Muscle	Psoas
8	chr9:108206200-108209600	Enhancers	Fetal Muscle Leg	muscle
9	chr9:108206600-108209600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr9:108206800-108209600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr9:108207000-108209600	Weak transcription	HMEC	breast
12	chr9:108207000-108209600	Weak transcription	NH-A	brain
13	chr9:108207000-108209800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr9:108207800-108209800	Weak transcription	Colonic Mucosa	Colon
15	chr9:108208000-108209600	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr9:108208000-108209600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr9:108208000-108209600	Weak transcription	Adipose Nuclei	Adipose
18	chr9:108208000-108209600	Weak transcription	Osteobl	bone
19	chr9:108208000-108209800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr9:108208000-108209800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr9:108208000-108209800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr9:108208000-108209800	Weak transcription	Duodenum Mucosa	Duodenum
23	chr9:108208000-108209800	Weak transcription	Left Ventricle	heart
24	chr9:108208200-108209600	Weak transcription	Brain Angular Gyrus	brain
25	chr9:108208200-108209600	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr9:108208200-108209600	Weak transcription	Stomach Smooth Muscle	stomach
27	chr9:108208200-108209600	Weak transcription	HSMM	muscle
28	chr9:108208200-108209600	Weak transcription	NHDF-Ad	bronchial
29	chr9:108208200-108209800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr9:108208200-108209800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr9:108208200-108209800	Weak transcription	Right Atrium	heart
32	chr9:108208200-108209800	Weak transcription	HSMMtube	muscle
33	chr9:108208400-108209600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr9:108208400-108209600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr9:108208400-108209600	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr9:108208400-108209600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr9:108208400-108209600	Weak transcription	Brain Anterior Caudate	brain
38	chr9:108208400-108209600	Weak transcription	Brain Inferior Temporal Lobe	brain
39	chr9:108208400-108209600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr9:108208400-108209600	Enhancers	Skeletal Muscle Male	skeletal muscle
41	chr9:108208400-108209600	Enhancers	HepG2	liver
42	chr9:108208400-108209800	Weak transcription	Brain Substantia Nigra	brain
43	chr9:108208600-108209600	Weak transcription	Cortex derived primary cultured neurospheres	brain
44	chr9:108208600-108209600	Weak transcription	Brain Hippocampus Middle	brain
45	chr9:108208600-108209600	Weak transcription	Pancreas	Pancrea
46	chr9:108209200-108209600	Enhancers	Brain Cingulate Gyrus	brain
47	chr9:108209200-108209600	Enhancers	Fetal Brain Male	brain
48	chr9:108209200-108209600	Enhancers	Dnd41	blood
49	chr9:108209200-108209800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr9:108209400-108209600	Enhancers	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links