Variant report

Variant	rs9398002
Chromosome Location	chr6:150785555-150785556
allele	C/T
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:19)

rs_ID	r²[population]
rs10499263	0.92[GIH][hapmap];0.92[MEX][hapmap];0.82[TSI][hapmap]
rs11964142	0.83[EUR][1000 genomes]
rs13193322	0.82[EUR][1000 genomes]
rs13196518	0.82[EUR][1000 genomes]
rs13206793	0.82[EUR][1000 genomes]
rs17079805	0.82[EUR][1000 genomes]
rs34219471	0.83[EUR][1000 genomes]
rs34782866	0.82[EUR][1000 genomes]
rs4075592	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4323319	0.92[GIH][hapmap];0.92[MEX][hapmap];0.82[TSI][hapmap]
rs4327711	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4469309	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55673001	0.81[EUR][1000 genomes]
rs6924786	0.82[EUR][1000 genomes]
rs73002876	0.82[EUR][1000 genomes]
rs9384533	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9384534	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9384545	0.83[EUR][1000 genomes]
rs9398004	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[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	nsv1020067	chr6:150730783-150870708	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv886772	chr6:150743364-151024280	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv886773	chr6:150751951-150799803	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9398002	PCMT1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150785200-150785600	Enhancers	Ovary	ovary

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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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