Variant report

Variant	rs6584099
Chromosome Location	chr10:98556785-98556786
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10399993	0.86[CHB][hapmap];0.83[CHD][hapmap];0.86[MEX][hapmap]
rs10882842	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10882854	0.95[CHB][hapmap];0.86[CHD][hapmap];0.91[GIH][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap]
rs11188924	0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2185294	0.95[CHB][hapmap];0.91[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap]
rs4532970	0.95[CHB][hapmap]
rs4919058	0.95[CHB][hapmap];0.86[CHD][hapmap];0.91[GIH][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap]
rs4919060	0.95[CHB][hapmap];0.86[CHD][hapmap];0.91[GIH][hapmap];0.91[MEX][hapmap];0.86[TSI][hapmap]
rs4919061	0.95[CHB][hapmap]
rs6584100	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7069290	0.95[CHB][hapmap];0.86[CHD][hapmap];0.91[GIH][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap]
rs7080839	0.95[CHB][hapmap];0.86[CHD][hapmap];0.91[GIH][hapmap];0.91[MEX][hapmap];0.86[TSI][hapmap]
rs7894160	0.82[CHB][hapmap];0.83[CHD][hapmap];0.86[MEX][hapmap]
rs7912176	0.95[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
3	nsv895910	chr10:98386483-98640994	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	21 gene(s)	inside rSNPs	diseases
4	nsv1053801	chr10:98506832-98610101	Flanking Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	19 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6584099	ZNF518A	cis	parietal	SCAN

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98546000-98561200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr10:98550800-98561200	Weak transcription	Primary B cells from cord blood	blood
3	chr10:98554200-98561200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr10:98554800-98561200	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr10:98555000-98561200	Weak transcription	Hela-S3	cervix
6	chr10:98555000-98561200	Weak transcription	Osteobl	bone
7	chr10:98555200-98558800	Weak transcription	Colonic Mucosa	Colon
8	chr10:98555200-98559600	Weak transcription	Adipose Nuclei	Adipose
9	chr10:98555200-98561200	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr10:98555200-98561200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr10:98555400-98557200	Weak transcription	HepG2	liver
12	chr10:98555400-98559200	Enhancers	Rectal Mucosa Donor 31	rectum
13	chr10:98555400-98560400	Enhancers	Fetal Intestine Small	intestine
14	chr10:98555400-98560600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr10:98555400-98560800	Enhancers	Fetal Intestine Large	intestine
16	chr10:98555400-98561200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr10:98555600-98557600	Weak transcription	Duodenum Mucosa	Duodenum
18	chr10:98555800-98557800	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr10:98556200-98557200	Enhancers	Sigmoid Colon	Sigmoid Colon

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

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