Variant report

Variant	rs598907
Chromosome Location	chr6:11586435-11586436
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:11583569..11586638-chr6:12012591..12014537,3	MCF-7	breast:
2	chr6:11585369..11588205-chr6:11589273..11592735,3	MCF-7	breast:
3	chr6:11585833..11588310-chr6:12287891..12289601,2	MCF-7	breast:
4	chr6:11585810..11586619-chr6:12603390..12604581,3	K562	blood:

Variant related genes	Relation type
ENSG00000095951	Chromatin interaction

Extended variants
information (count: 102 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs11751931	0.85[EUR][1000 genomes]
rs16871371	0.85[EUR][1000 genomes]
rs17607537	0.85[EUR][1000 genomes]
rs17607558	0.85[EUR][1000 genomes]
rs17675742	0.85[EUR][1000 genomes]
rs17675772	0.85[EUR][1000 genomes]
rs2140109	0.85[EUR][1000 genomes]
rs2177158	0.85[EUR][1000 genomes]
rs2177159	0.84[EUR][1000 genomes]
rs34066851	0.85[EUR][1000 genomes]
rs34255222	0.85[EUR][1000 genomes]
rs34336996	0.85[EUR][1000 genomes]
rs34342746	0.85[EUR][1000 genomes]
rs34363244	0.85[EUR][1000 genomes]
rs34486680	0.85[EUR][1000 genomes]
rs34586980	0.85[EUR][1000 genomes]
rs34630993	0.85[EUR][1000 genomes]
rs34678413	0.85[EUR][1000 genomes]
rs34793558	0.85[EUR][1000 genomes]
rs34951511	0.84[EUR][1000 genomes]
rs35074878	0.85[EUR][1000 genomes]
rs35087778	0.85[EUR][1000 genomes]
rs35100959	0.85[EUR][1000 genomes]
rs35160576	0.80[EUR][1000 genomes]
rs35250180	0.85[EUR][1000 genomes]
rs35491413	0.85[EUR][1000 genomes]
rs35658210	0.85[EUR][1000 genomes]
rs35877256	0.84[EUR][1000 genomes]
rs35938392	0.85[EUR][1000 genomes]
rs36021289	0.85[EUR][1000 genomes]
rs36023953	0.85[EUR][1000 genomes]
rs36053861	0.85[EUR][1000 genomes]
rs36120363	0.85[EUR][1000 genomes]
rs3942485	0.85[EUR][1000 genomes]
rs4711303	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs4713556	0.85[EUR][1000 genomes]
rs4713562	0.94[CEU][hapmap];0.85[EUR][1000 genomes]
rs4713569	0.85[EUR][1000 genomes]
rs4713577	0.94[CEU][hapmap]
rs4713579	0.94[CEU][hapmap];0.83[CHB][hapmap];0.89[EUR][1000 genomes]
rs471560	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs471752	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs478147	1.00[CEU][hapmap];0.88[CHB][hapmap]
rs483637	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs490466	1.00[CEU][hapmap];0.94[CHB][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs509971	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs513870	0.80[CEU][hapmap];0.88[CHB][hapmap]
rs519140	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs524159	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs528679	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs534042	0.91[ASN][1000 genomes]
rs539160	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs552681	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs554671	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs555034	1.00[CEU][hapmap];0.87[CHB][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs555742	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs566237	0.81[CEU][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs571683	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs573082	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs574254	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs578507	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs581285	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs586105	0.81[AMR][1000 genomes]
rs605058	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs606402	1.00[CEU][hapmap];0.94[CHB][hapmap]
rs620729	0.80[CEU][hapmap];0.88[CHB][hapmap]
rs62394918	0.84[EUR][1000 genomes]
rs62394920	0.85[EUR][1000 genomes]
rs62394921	0.85[EUR][1000 genomes]
rs62394922	0.85[EUR][1000 genomes]
rs62394925	0.85[EUR][1000 genomes]
rs628980	1.00[CEU][hapmap];0.94[CHB][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs637564	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs645198	0.99[ASN][1000 genomes]
rs6457608	0.85[EUR][1000 genomes]
rs661055	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs662296	0.98[ASN][1000 genomes]
rs663283	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs66502560	0.85[EUR][1000 genomes]
rs67452935	0.85[EUR][1000 genomes]
rs675565	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs67807015	0.84[EUR][1000 genomes]
rs678862	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs685384	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs687163	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6904209	0.83[EUR][1000 genomes]
rs6907890	0.85[EUR][1000 genomes]
rs6907900	0.85[EUR][1000 genomes]
rs6907944	0.85[EUR][1000 genomes]
rs6923613	0.85[EUR][1000 genomes]
rs6923798	0.84[EUR][1000 genomes]
rs6936326	0.82[CHB][hapmap]
rs7752671	0.83[EUR][1000 genomes]
rs821443	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9348893	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9357151	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9366802	0.85[EUR][1000 genomes]
rs9368729	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9380321	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9394108	0.85[EUR][1000 genomes]
rs9394109	0.94[CEU][hapmap];0.88[CHB][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9394115	1.00[CEU][hapmap];0.94[CHB][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs598907	TMEM170B	cis	Adipose Subcutaneous	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11567600-11586600	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr6:11568000-11586600	Weak transcription	Brain Angular Gyrus	brain
3	chr6:11568600-11586800	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr6:11571800-11586600	Weak transcription	Ovary	ovary
5	chr6:11584200-11586600	Enhancers	HSMMtube	muscle
6	chr6:11584400-11586600	Enhancers	HSMM	muscle
7	chr6:11584600-11587200	Enhancers	A549	lung
8	chr6:11584800-11586600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr6:11585200-11587200	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr6:11585400-11586600	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr6:11585400-11586600	Enhancers	Primary neutrophils fromperipheralblood	blood
12	chr6:11585400-11587000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr6:11585400-11587400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr6:11585400-11587400	Enhancers	HUVEC	blood vessel
15	chr6:11585600-11586600	Enhancers	Muscle Satellite Cultured Cells	--
16	chr6:11585600-11587200	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr6:11586000-11587400	Enhancers	NHDF-Ad	bronchial
18	chr6:11586000-11587800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr6:11586200-11586600	Enhancers	Osteobl	bone
20	chr6:11586200-11586800	Enhancers	Fetal Intestine Small	intestine
21	chr6:11586200-11587000	Enhancers	Liver	Liver
22	chr6:11586200-11587200	Enhancers	Fetal Intestine Large	intestine
23	chr6:11586200-11587400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr6:11586200-11587400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr6:11586200-11587400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr6:11586200-11587400	Enhancers	Placenta	Placenta
27	chr6:11586200-11587600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr6:11586200-11587800	Enhancers	NH-A	brain
29	chr6:11586200-11591200	Enhancers	NHLF	lung
30	chr6:11586400-11586800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr6:11586400-11586800	Enhancers	Hela-S3	cervix
32	chr6:11586400-11587000	Enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr6:11586400-11587000	Enhancers	Fetal Lung	lung
34	chr6:11586400-11587200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr6:11586400-11587200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr6:11586400-11587200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr6:11586400-11587200	Enhancers	iPS-20b Cell Line	embryonic stem cell
38	chr6:11586400-11587200	Enhancers	Adipose Nuclei	Adipose
39	chr6:11586400-11587200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
40	chr6:11586400-11587200	Enhancers	Colon Smooth Muscle	Colon
41	chr6:11586400-11587200	Enhancers	Duodenum Mucosa	Duodenum
42	chr6:11586400-11587200	Enhancers	Pancreatic Islets	Pancreatic Islet
43	chr6:11586400-11587200	Enhancers	Placenta Amnion	Placenta Amnion
44	chr6:11586400-11587200	Enhancers	Rectal Smooth Muscle	rectum
45	chr6:11586400-11587200	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
46	chr6:11586400-11587400	Enhancers	HUES64 Cell Line	embryonic stem cell
47	chr6:11586400-11587400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr6:11586400-11587400	Enhancers	Stomach Smooth Muscle	stomach
49	chr6:11586400-11587400	Enhancers	HepG2	liver
50	chr6:11586400-11587600	Enhancers	Fetal Stomach	stomach

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