Variant report

Variant	rs9261541
Chromosome Location	chr6:30146019-30146020
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1063280	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3094079	0.86[AFR][1000 genomes]
rs3094137	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3094138	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3130385	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3130390	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4476873	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4959045	0.86[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs9261542	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9261547	0.86[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs9261558	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9261588	0.86[AFR][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:4)

SNP	Gene	Cis/trans	Tissue	Source
rs9261541	HCG22	cis	lymphoblastoid	seeQTL
rs9261541	PRSS16	cis	parietal	SCAN
rs9261541	ZKSCAN3	cis	cerebellum	SCAN
rs9261541	ZNF187	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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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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