Variant report

Variant	rs586105
Chromosome Location	chr6:11560162-11560163
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs4711303	0.81[CEU][hapmap];0.89[JPT][hapmap]
rs4713562	0.89[JPT][hapmap]
rs4713577	0.88[JPT][hapmap]
rs4713579	0.88[JPT][hapmap]
rs471560	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs471752	0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs478147	0.89[JPT][hapmap]
rs490466	0.88[CHD][hapmap];0.87[GIH][hapmap];0.94[JPT][hapmap];0.90[TSI][hapmap];0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs509971	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs519140	0.82[ASN][1000 genomes]
rs524159	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs538808	0.84[ASN][1000 genomes]
rs539160	0.82[ASN][1000 genomes]
rs552681	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs554671	0.82[CHB][hapmap];0.87[CHD][hapmap];0.87[GIH][hapmap];0.88[JPT][hapmap];0.90[TSI][hapmap];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs555034	0.89[JPT][hapmap];0.82[ASN][1000 genomes]
rs555742	0.94[JPT][hapmap]
rs571683	0.84[ASN][1000 genomes]
rs573082	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs574254	0.82[ASN][1000 genomes]
rs578507	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs581285	0.84[ASN][1000 genomes]
rs598907	0.81[AMR][1000 genomes]
rs606402	0.88[CHD][hapmap];0.80[GIH][hapmap];0.89[JPT][hapmap];0.88[TSI][hapmap]
rs628980	0.88[CHD][hapmap];0.80[GIH][hapmap];0.89[JPT][hapmap];0.88[TSI][hapmap];0.82[ASN][1000 genomes]
rs661055	0.85[ASN][1000 genomes]
rs663283	0.84[ASN][1000 genomes]
rs675565	0.82[CHB][hapmap];0.88[CHD][hapmap];0.87[GIH][hapmap];0.89[JPT][hapmap];0.90[TSI][hapmap];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs678862	0.82[CHB][hapmap];0.89[JPT][hapmap];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs685384	0.94[JPT][hapmap];0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs687163	0.82[ASN][1000 genomes]
rs821443	0.85[ASN][1000 genomes]
rs9380321	0.82[ASN][1000 genomes]
rs9394109	0.89[JPT][hapmap]
rs9394115	0.88[CHD][hapmap];0.80[GIH][hapmap];0.89[JPT][hapmap];0.88[TSI][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv600989	chr6:11509323-11581990	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv1015234	chr6:11545582-11583516	Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs586105	TMEM170B	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11540600-11566600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr6:11548000-11566600	Weak transcription	Placenta	Placenta
3	chr6:11548200-11565800	Weak transcription	Primary B cells from cord blood	blood
4	chr6:11551600-11566600	Weak transcription	Aorta	Aorta
5	chr6:11552800-11566800	Weak transcription	Brain Anterior Caudate	brain
6	chr6:11553200-11565000	Weak transcription	Brain Cingulate Gyrus	brain
7	chr6:11553400-11565800	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr6:11553400-11566600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr6:11553400-11566800	Weak transcription	Gastric	stomach
10	chr6:11553400-11567000	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr6:11556400-11568000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr6:11556800-11566800	Weak transcription	Lung	lung
13	chr6:11556800-11571600	Weak transcription	Ovary	ovary
14	chr6:11557000-11565000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:11557000-11575600	Weak transcription	Spleen	Spleen
16	chr6:11557200-11566200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr6:11557200-11575400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:11557400-11561200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr6:11557400-11561600	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr6:11557400-11565800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr6:11557400-11573200	Weak transcription	Psoas Muscle	Psoas
22	chr6:11558400-11566800	Weak transcription	Fetal Stomach	stomach
23	chr6:11559000-11561000	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr6:11559000-11566400	Weak transcription	Fetal Brain Female	brain
25	chr6:11559200-11566000	Weak transcription	Primary hematopoietic stem cells	blood
26	chr6:11559400-11565800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr6:11559800-11561200	Weak transcription	Primary monocytes fromperipheralblood	blood
28	chr6:11559800-11566600	Weak transcription	Skeletal Muscle Female	skeletal muscle

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