Variant report

Variant	rs9535679
Chromosome Location	chr13:52038270-52038271
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:52025548..52028381-chr13:52036857..52038465,3	MCF-7	breast:
2	chr13:52033233..52035257-chr13:52037925..52039840,2	K562	blood:

Variant related genes	Relation type
ENSG00000236778	Chromatin interaction
ENSG00000224892	Chromatin interaction
ENSG00000102786	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs17075688	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2026526	0.87[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs2026527	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2274929	0.80[ASN][1000 genomes]
rs6561634	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73197809	0.84[EUR][1000 genomes]
rs73197821	0.98[EUR][1000 genomes]
rs73197824	0.89[EUR][1000 genomes]
rs73197826	0.94[EUR][1000 genomes]
rs7333661	0.80[ASN][1000 genomes]
rs7335144	0.80[EUR][1000 genomes]
rs7989674	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7989850	0.98[EUR][1000 genomes]
rs7998084	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8001311	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8001787	0.85[ASN][1000 genomes]
rs9316539	0.80[ASN][1000 genomes]
rs9316541	0.80[EUR][1000 genomes]
rs9316545	0.90[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs9316546	0.96[EUR][1000 genomes]
rs9526754	0.80[ASN][1000 genomes]
rs9526757	0.94[ASN][1000 genomes]
rs9526759	0.80[EUR][1000 genomes]
rs9526761	0.84[EUR][1000 genomes]
rs9526764	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9526768	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9535661	0.80[EUR][1000 genomes]
rs9535662	0.80[EUR][1000 genomes]
rs9535663	0.80[EUR][1000 genomes]
rs9535665	0.82[EUR][1000 genomes]
rs9535669	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9535670	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9535671	0.98[EUR][1000 genomes]
rs9535672	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9535673	0.97[ASN][1000 genomes]
rs9535674	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9535677	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9535678	0.93[EUR][1000 genomes]
rs9535680	0.93[EUR][1000 genomes]
rs9535682	0.95[EUR][1000 genomes]
rs9535683	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9535687	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9535688	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9535689	0.94[EUR][1000 genomes]
rs9535690	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9535693	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9535694	0.89[EUR][1000 genomes]
rs9535696	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9535697	0.93[EUR][1000 genomes]
rs9535699	0.89[EUR][1000 genomes]
rs9568600	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9568603	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9568608	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9568612	0.94[EUR][1000 genomes]
rs9634842	0.84[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9535679	INTS6	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:52030600-52038800	Weak transcription	HepG2	liver
2	chr13:52031000-52039800	Weak transcription	A549	lung
3	chr13:52031000-52044800	Weak transcription	Liver	Liver
4	chr13:52031200-52041400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr13:52031600-52041600	Weak transcription	Pancreas	Pancrea
6	chr13:52031800-52045400	Weak transcription	Primary B cells from cord blood	blood

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