Variant report

Variant	rs528679
Chromosome Location	chr6:11599902-11599903
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:11598388..11600876-chr6:11602880..11604674,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs471560	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs471752	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs483637	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs489516	0.91[ASN][1000 genomes]
rs490466	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs505571	0.80[EUR][1000 genomes]
rs509971	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs515246	0.94[ASN][1000 genomes]
rs519140	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs520927	0.94[ASN][1000 genomes]
rs524159	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs539160	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs552681	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs554671	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs555034	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs555742	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs566237	0.82[AMR][1000 genomes]
rs571683	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs573082	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs574254	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs578507	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs581285	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs598907	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs604711	0.94[ASN][1000 genomes]
rs605058	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs628980	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs637564	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs661055	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs663283	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs675565	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs678862	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs685384	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs687163	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs821443	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9348893	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9380321	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9394115	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs528679	TMEM170B	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11593200-11600800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr6:11593200-11605400	Weak transcription	Right Atrium	heart
3	chr6:11593600-11604600	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr6:11593800-11609800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr6:11595200-11602400	Weak transcription	HSMMtube	muscle
6	chr6:11597400-11606600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:11598000-11600000	Enhancers	Primary neutrophils fromperipheralblood	blood
8	chr6:11598000-11600000	Enhancers	Placenta	Placenta
9	chr6:11599000-11602600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr6:11599200-11600000	Enhancers	Placenta Amnion	Placenta Amnion
11	chr6:11599200-11603400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:11599600-11600000	Weak transcription	Ovary	ovary
13	chr6:11599600-11602000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr6:11599600-11602200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:11599600-11602200	Weak transcription	A549	lung
16	chr6:11599600-11602400	Weak transcription	HSMM	muscle
17	chr6:11599800-11603000	Weak transcription	Fetal Intestine Small	intestine
18	chr6:11599800-11604400	Weak transcription	Primary monocytes fromperipheralblood	blood
19	chr6:11599800-11604400	Weak transcription	Monocytes-CD14+_RO01746	blood
20	chr6:11599800-11606600	Weak transcription	Fetal Intestine Large	intestine

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