Variant report

Variant	rs9467799
Chromosome Location	chr6:26578364-26578365
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:26215403..26219104-chr6:26575436..26578957,4	K562	blood:
2	chr6:26575145..26580691-chr6:26582301..26587887,10	K562	blood:
3	chr6:26216001..26219242-chr6:26574102..26578957,5	K562	blood:
4	chr6:26327970..26330676-chr6:26575820..26578738,2	K562	blood:
5	chr6:26576709..26579469-chr6:26595010..26597747,2	MCF-7	breast:
6	chr6:26575952..26578920-chr6:26582301..26585861,4	K562	blood:
7	chr6:26566413..26579648-chr6:26592370..26599609,38	K562	blood:
8	chr6:26520128..26522932-chr6:26576156..26579285,4	K562	blood:
9	chr6:26575954..26578514-chr6:27111915..27114661,2	K562	blood:
10	chr6:26576158..26578683-chr6:27099793..27101418,3	K562	blood:
11	chr6:26535611..26540047-chr6:26576394..26579600,4	K562	blood:
12	chr6:26285889..26287811-chr6:26576369..26578960,2	K562	blood:
13	chr6:26577794..26579941-chr6:27103035..27105397,2	K562	blood:
14	chr6:26568033..26580216-chr6:26588796..26603066,49	K562	blood:

No data

Variant related genes	Relation type
ENSG00000168274	Chromatin interaction
ENSG00000228223	Chromatin interaction
ENSG00000124635	Chromatin interaction
ENSG00000196787	Chromatin interaction
ENSG00000146109	Chromatin interaction
ENSG00000197903	Chromatin interaction
ENSG00000182952	Chromatin interaction
ENSG00000187990	Chromatin interaction

Extended variants
information (count: 124 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:121)

rs_ID	r²[population]
rs1001687	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10214634	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10223789	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10223792	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10484442	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1056347	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1056667	0.86[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs1078679	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10946834	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs10946835	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs10946837	0.87[EUR][1000 genomes]
rs11752946	0.85[EUR][1000 genomes]
rs11754138	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs11756120	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs12526680	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12663883	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12663894	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12665431	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1321479	0.85[AFR][1000 genomes]
rs1321480	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1321481	0.86[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs1321482	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1490488	0.81[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs1535276	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1535277	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1570059	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1570060	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1570061	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1884946	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs1884947	0.85[EUR][1000 genomes]
rs1884948	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1884949	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1977201	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2208331	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs2224380	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2255070	0.84[AFR][1000 genomes]
rs2393669	0.81[AFR][1000 genomes]
rs2393670	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2451740	0.81[ASN][1000 genomes]
rs2494692	0.81[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs28558133	0.84[AFR][1000 genomes]
rs35355150	0.81[EUR][1000 genomes]
rs3736781	0.84[AFR][1000 genomes]
rs3736782	0.84[AFR][1000 genomes]
rs3757151	0.84[AFR][1000 genomes]
rs3800303	0.84[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs4368798	0.84[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs4573	0.83[EUR][1000 genomes]
rs4713006	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs4713008	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs4871	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs55930917	0.95[EUR][1000 genomes]
rs6456733	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6456734	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6456735	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6903973	0.84[AFR][1000 genomes]
rs6909277	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6910899	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs6910930	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs6913398	0.90[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6913462	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6913877	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6918360	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6918506	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6918854	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6922824	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6924838	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6924865	0.82[EUR][1000 genomes]
rs6925087	0.86[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6925703	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs6925783	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6925895	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6926629	0.84[AFR][1000 genomes]
rs6930120	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6932156	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6932350	0.86[EUR][1000 genomes]
rs6932865	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6933176	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6940053	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6940188	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6941022	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs767471	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7767847	0.83[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs9295694	0.86[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs9295695	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9295698	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9357010	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9358952	0.84[AFR][1000 genomes]
rs9358954	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9379887	0.89[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs9393729	0.86[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs9393731	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9393732	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs9461259	0.84[AFR][1000 genomes]
rs9461267	0.87[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs9461270	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9461271	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9461272	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9461273	0.85[ASN][1000 genomes]
rs9461275	0.84[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs9461276	0.83[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs9467773	0.82[AFR][1000 genomes]
rs9467774	0.85[AFR][1000 genomes]
rs9467775	0.86[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs9467776	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs9467778	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9467779	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9467782	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9467783	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9467784	0.87[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9467787	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9467791	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9467796	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9467797	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9467798	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9467800	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9467802	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9467804	0.81[ASN][1000 genomes]
rs9467805	0.85[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs9467810	0.83[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs9986382	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[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	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv948921	chr6:26556890-27443957	Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	472 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs9467799	ZNF322	cis	Thyroid	GTEx
rs9467799	HCG11	Cis_1M	lymphoblastoid	RTeQTL
rs9467799	RP11-457M11.2	cis	Thyroid	GTEx
rs9467799	RP11-457M11.2	cis	Nerve Tibial	GTEx
rs9467799	HMGN4	Cis_1M	lymphoblastoid	RTeQTL
rs9467799	ZNF322	cis	Nerve Tibial	GTEx
rs9467799	RP11-457M11.2	cis	lung	GTEx

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26575600-26578600	Active TSS	HUES64 Cell Line	embryonic stem cell
2	chr6:26575800-26578400	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr6:26575800-26578400	Active TSS	H9 Cell Line	embryonic stem cell
4	chr6:26575800-26578400	Active TSS	HUES6 Cell Line	embryonic stem cell
5	chr6:26575800-26578600	Active TSS	H1 Cell Line	embryonic stem cell
6	chr6:26575800-26578600	Active TSS	HUES48 Cell Line	embryonic stem cell
7	chr6:26576600-26578400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr6:26576800-26578400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
9	chr6:26576800-26578800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr6:26577400-26578400	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr6:26577400-26578800	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
12	chr6:26578000-26578600	Active TSS	Osteobl	bone
13	chr6:26578000-26578800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
14	chr6:26578000-26579000	ZNF genes & repeats	GM12878-XiMat	blood
15	chr6:26578200-26578400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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