Variant report

Variant	rs9261539
Chromosome Location	chr6:30145083-30145084
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs1573295	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2074472	0.93[ASN][1000 genomes]
rs2074473	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2097772	0.81[ASN][1000 genomes]
rs2106070	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2106071	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2107196	0.91[ASN][1000 genomes]
rs2158283	0.89[ASN][1000 genomes]
rs2284164	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2394737	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2508029	0.92[ASN][1000 genomes]
rs28441239	0.93[ASN][1000 genomes]
rs2844778	0.83[ASN][1000 genomes]
rs2844782	0.92[ASN][1000 genomes]
rs2844786	0.92[ASN][1000 genomes]
rs3094131	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3094132	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3094139	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3094140	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3094614	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3094615	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3094639	0.82[ASN][1000 genomes]
rs3130381	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3130382	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3130383	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3130384	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3130386	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3130387	0.81[ASN][1000 genomes]
rs3130388	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3130389	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3130391	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3130393	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3130394	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3132665	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3132668	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3132669	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3132671	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3132672	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3132673	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3132674	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6457164	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457165	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457167	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs718254	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7382110	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7383511	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs757257	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs765977	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7763162	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7764012	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7774730	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs885914	0.84[ASN][1000 genomes]
rs885915	0.86[ASN][1000 genomes]
rs916568	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs916571	0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs916572	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9261543	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261546	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9261548	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv884057	chr6:30140540-30149251	ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent Enhancer Enhancers Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9261539	GRM4	cis	cerebellum	SCAN
rs9261539	ZKSCAN3	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30139000-30152000	Weak transcription	Liver	Liver
2	chr6:30141200-30146200	Weak transcription	HepG2	liver
3	chr6:30142000-30149200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:30145000-30173800	Weak transcription	Right Atrium	heart

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