Variant report

Variant	rs4296926
Chromosome Location	chr6:109808526-109808527
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:109807301..109808872-chr6:109817756..109819335,2	MCF-7	breast:
2	chr6:109802624..109804740-chr6:109806103..109808684,3	MCF-7	breast:
3	chr6:109770371..109773024-chr6:109807786..109809712,3	MCF-7	breast:
4	chr6:109760450..109762516-chr6:109807313..109809083,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000135587	Chromatin interaction
ENSG00000112365	Chromatin interaction
ENSG00000135596	Chromatin interaction
ENSG00000185250	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs1096136	0.84[EUR][1000 genomes]
rs1096138	0.89[EUR][1000 genomes]
rs12200787	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1358759	0.82[EUR][1000 genomes]
rs1590187	0.82[EUR][1000 genomes]
rs1925921	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1985123	0.82[EUR][1000 genomes]
rs1998812	0.81[EUR][1000 genomes]
rs2064822	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2357127	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4946982	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4946995	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4946997	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4946998	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4947004	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs4947006	0.86[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs56125306	0.85[EUR][1000 genomes]
rs6568579	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6568580	0.82[EUR][1000 genomes]
rs6568582	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6568583	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6568591	0.86[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs6911851	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6912368	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6916239	0.81[EUR][1000 genomes]
rs6921303	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6925886	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6931630	0.91[EUR][1000 genomes]
rs6932774	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6938741	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7771729	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7772109	0.81[EUR][1000 genomes]
rs7773915	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7775420	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs829817	0.82[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs911022	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs911023	0.86[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9320290	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9320300	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9372220	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9374092	0.81[EUR][1000 genomes]
rs9374096	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9386814	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9400289	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9400300	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs942924	0.81[EUR][1000 genomes]
rs9968792	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4296926	C6orf199	Cis_1M	lymphoblastoid	RTeQTL
rs4296926	SMPD2	cis	Whole Blood	GTEx

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109804400-109814200	Weak transcription	Gastric	stomach
2	chr6:109805000-109817000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr6:109805200-109809200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr6:109805400-109808800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr6:109805400-109812000	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr6:109805600-109812400	Weak transcription	Brain Angular Gyrus	brain
7	chr6:109806000-109811400	Weak transcription	Dnd41	blood
8	chr6:109806200-109812200	Weak transcription	Primary hematopoietic stem cells	blood
9	chr6:109806800-109812200	Weak transcription	Fetal Muscle Leg	muscle
10	chr6:109807400-109812800	Weak transcription	Placenta	Placenta

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