Variant report

Variant	rs6925087
Chromosome Location	chr6:26592853-26592854
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr6:26592800-26592950	HCFaa	heart:	n/a	n/a
2	CTCF	chr6:26592800-26592950	HCT-116	colon:	n/a	n/a
3	CTCF	chr6:26592800-26592950	NHDF-neo	bronchial:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:26158173..26160142-chr6:26590992..26593219,3	K562	blood:
2	chr6:26269065..26272494-chr6:26592210..26596038,3	MCF-7	breast:
3	chr6:26571551..26574960-chr6:26589936..26592999,3	MCF-7	breast:
4	chr6:26581396..26586059-chr6:26589997..26593151,4	K562	blood:

Variant related genes	Relation type
ABT1	TF binding region
ENSG00000256018	Chromatin interaction
ENSG00000158373	Chromatin interaction

Extended variants
information (count: 99 )
Associated
traits (count: 10 )

rSNPs within LD-proxies of this variant (count:98)

rs_ID	r²[population]
rs1001687	0.84[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs1021372	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1021373	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10214634	0.81[AFR][1000 genomes]
rs10223789	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs10223792	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs1027203	0.83[EUR][1000 genomes]
rs1027204	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10484442	0.82[AFR][1000 genomes]
rs1078679	0.82[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs12663883	0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12663894	0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12665431	0.85[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs13207371	0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1321482	0.86[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs1490488	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1535276	0.80[AFR][1000 genomes]
rs1570059	0.85[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs1570060	0.84[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs1570061	0.86[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs1884946	0.81[AFR][1000 genomes]
rs1884948	0.80[ASN][1000 genomes]
rs1884949	0.82[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs1977201	0.84[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs2130657	0.84[AFR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2172007	0.83[EUR][1000 genomes]
rs2224380	0.82[AFR][1000 genomes]
rs2451711	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2451712	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2451731	0.83[AFR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2451740	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2451741	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2451744	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2451750	0.85[AFR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2451751	0.85[AFR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2494692	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2494700	0.83[AFR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2494701	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2494709	0.80[AFR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2494713	0.81[AFR][1000 genomes];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2494716	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2498351	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2498380	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2504565	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2504566	0.84[AFR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2504567	0.83[AFR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2504571	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2504592	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2504600	0.85[AFR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34453863	0.82[EUR][1000 genomes]
rs3800303	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4368798	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4871	0.81[AFR][1000 genomes]
rs62394558	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6456733	0.84[AFR][1000 genomes]
rs6456734	0.82[AFR][1000 genomes]
rs6456735	0.86[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs6456739	0.81[AMR][1000 genomes]
rs6913398	0.84[AFR][1000 genomes]
rs6913462	0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs6913877	0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs6918360	0.88[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs6918506	0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs6918854	0.86[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs6922824	0.82[AFR][1000 genomes]
rs6924838	0.82[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs6925895	0.82[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs6930120	0.82[AFR][1000 genomes]
rs6932156	0.81[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs6932865	0.81[AFR][1000 genomes]
rs6933176	0.81[AFR][1000 genomes]
rs6940053	0.81[AFR][1000 genomes]
rs6940188	0.81[AFR][1000 genomes]
rs6941022	0.82[AFR][1000 genomes]
rs767471	0.82[AFR][1000 genomes]
rs7767847	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9295698	0.84[AFR][1000 genomes]
rs9295701	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9461270	0.81[AFR][1000 genomes]
rs9461271	0.81[AFR][1000 genomes]
rs9461272	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs9461273	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9461275	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461276	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9467782	0.81[AFR][1000 genomes]
rs9467783	0.81[AFR][1000 genomes]
rs9467791	0.81[AFR][1000 genomes]
rs9467796	0.80[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs9467797	0.82[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs9467798	0.85[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs9467799	0.86[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs9467800	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs9467802	0.85[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs9467804	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9467805	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9467810	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9467813	0.84[AFR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9986382	0.81[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	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:10)

SNP	Gene	Cis/trans	Tissue	Source
rs6925087	HMGN4	Cis_1M	lymphoblastoid	RTeQTL
rs6925087	RP11-457M11.2	cis	lung	GTEx
rs6925087	ZNF322	cis	Thyroid	GTEx
rs6925087	RP11-457M11.2	cis	Nerve Tibial	GTEx
rs6925087	ZNF322A	cis	multi-tissue	Pritchard
rs6925087	ZNF322	cis	Nerve Tibial	GTEx
rs6925087	ZNF322	cis	Artery Tibial	GTEx
rs6925087	RP11-457M11.2	cis	Thyroid	GTEx
rs6925087	HCG11	Cis_1M	lymphoblastoid	RTeQTL
rs6925087	RP11-457M11.2	cis	Artery Tibial	GTEx

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26592600-26593600	Enhancers	K562	blood
2	chr6:26592800-26593000	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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