Variant report

Variant	rs813227
Chromosome Location	chr6:24353742-24353743
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1087266	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1277337	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1277348	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2753916	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2792666	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs793664	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs793697	0.82[ASW][hapmap];0.93[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs793698	0.90[YRI][hapmap]
rs793708	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs793711	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs793719	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs793720	0.80[MKK][hapmap];0.95[YRI][hapmap];0.82[AFR][1000 genomes]
rs793721	0.95[YRI][hapmap];0.82[AFR][1000 genomes]
rs793722	0.94[YRI][hapmap]

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	nsv1026638	chr6:24347972-24475300	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs813227	ZKSCAN4	cis	parietal	SCAN
rs813227	ZSCAN12	cis	parietal	SCAN
rs813227	HIST1H3G	cis	cerebellum	SCAN
rs813227	ZKSCAN4	cis	cerebellum	SCAN
rs813227	HIST1H3E	cis	cerebellum	SCAN
rs813227	MRS2L	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24339600-24355600	Weak transcription	Pancreas	Pancrea
2	chr6:24341200-24357600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:24345800-24356800	Weak transcription	Fetal Intestine Large	intestine
4	chr6:24346000-24354800	Weak transcription	A549	lung
5	chr6:24347000-24357000	Weak transcription	Fetal Intestine Small	intestine
6	chr6:24353200-24358800	Active TSS	Fetal Kidney	kidney
7	chr6:24353600-24354200	Enhancers	HepG2	liver

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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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