Variant report

Variant	rs10983622
Chromosome Location	chr9:98555942-98555943
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:98555048..98557462-chr9:98559025..98561990,2	K562	blood:

Extended variants
information (count: 47 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10121403	0.82[EUR][1000 genomes]
rs10481647	0.81[CHB][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10739632	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10760675	0.81[CHB][hapmap]
rs10760692	0.80[AMR][1000 genomes]
rs10818017	0.87[CHB][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10983692	0.86[CHB][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10983739	0.86[CHB][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10983773	0.86[CHB][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10983818	0.86[CHB][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12004422	0.82[EUR][1000 genomes]
rs12375861	0.86[CHB][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1928253	0.86[CHB][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2117432	0.87[CHB][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2164156	0.87[CHB][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2164157	0.87[CHB][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2770837	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3930253	0.84[AMR][1000 genomes]
rs4743458	0.80[AMR][1000 genomes]
rs585223	0.85[AMR][1000 genomes]
rs601916	0.81[AMR][1000 genomes]
rs615866	0.81[CHB][hapmap]
rs626264	0.80[AMR][1000 genomes]
rs631273	0.81[CHB][hapmap];0.85[AMR][1000 genomes]
rs6478984	0.89[EUR][1000 genomes]
rs676453	0.84[AMR][1000 genomes]
rs680468	0.84[AMR][1000 genomes]
rs680754	0.85[AMR][1000 genomes]
rs689627	0.81[CHB][hapmap]
rs689749	0.81[CHB][hapmap]
rs689820	0.80[AMR][1000 genomes]
rs689871	0.81[EUR][1000 genomes]
rs690222	0.81[CHB][hapmap]
rs690304	0.81[CHB][hapmap];0.82[EUR][1000 genomes]
rs690455	0.84[AMR][1000 genomes]
rs700963	0.86[CHB][hapmap];0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7024710	0.84[AMR][1000 genomes]
rs7868559	0.85[AMR][1000 genomes]
rs816671	0.93[ASN][1000 genomes]
rs816676	0.87[CHB][hapmap];0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs816681	0.93[ASN][1000 genomes]
rs913408	0.84[AMR][1000 genomes]
rs9409321	0.87[CHB][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9409322	0.86[CHB][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[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	nsv893598	chr9:98508628-98645674	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
2	nsv482884	chr9:98530027-98691937	Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
3	nsv893599	chr9:98542410-98991254	Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10983622	LINC00476	cis	Nerve Tibial	GTEx
rs10983622	C9orf130	Cis_1M	lymphoblastoid	RTeQTL
rs10983622	LINC00476	cis	lung	GTEx
rs10983622	LINC00476	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98548200-98558400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:98548400-98578400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:98555400-98557600	Enhancers	HUVEC	blood vessel
4	chr9:98555400-98557600	Enhancers	NHDF-Ad	bronchial
5	chr9:98555600-98556000	Bivalent Enhancer	Osteobl	bone
6	chr9:98555800-98556000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr9:98555800-98556000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr9:98555800-98556800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr9:98555800-98557600	Enhancers	Muscle Satellite Cultured Cells	--
10	chr9:98555800-98557600	Enhancers	HSMMtube	muscle
11	chr9:98555800-98557600	Enhancers	NHLF	lung

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