Variant report

Variant	rs7767592
Chromosome Location	chr6:150214610-150214611
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 14 )

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1334510	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2095376	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2342767	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2342768	0.85[EUR][1000 genomes]
rs2342769	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2342770	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3823021	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4458704	0.92[EUR][1000 genomes]
rs4869763	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4869764	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4870116	0.90[EUR][1000 genomes]
rs6557133	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6933882	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6935829	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6939761	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7740145	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7742692	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7742993	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7744821	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7747435	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7747457	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7753544	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7756850	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7757972	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7757984	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7758020	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7758033	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7763719	0.82[EUR][1000 genomes]
rs7763849	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7764376	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7767588	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7768626	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7768665	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7769118	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7771014	0.92[EUR][1000 genomes]
rs7774787	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9322225	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9322228	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9371215	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9371223	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9371504	0.88[EUR][1000 genomes]
rs9371505	0.88[EUR][1000 genomes]
rs9371533	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9371541	0.88[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs9371542	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9371544	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9383577	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9383584	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9383912	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9383913	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9383914	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9383921	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9383940	0.94[EUR][1000 genomes]
rs9397058	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9397398	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9397420	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9397434	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9478192	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9968871	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9969044	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886764	chr6:150114745-150393683	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS 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	40 gene(s)	inside rSNPs	diseases
2	nsv517022	chr6:150145001-150426272	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv886765	chr6:150198491-150288722	Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	esv1817805	chr6:150209592-150268708	Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:14)

SNP	Gene	Cis/trans	Tissue	Source
rs7767592	RP11-350J20.5	cis	lung	GTEx
rs7767592	RAET1G	cis	Thyroid	GTEx
rs7767592	LRP11	cis	Skin Sun Exposed Lower leg	GTEx
rs7767592	C6orf72	Cis_1M	lymphoblastoid	RTeQTL
rs7767592	RP11-350J20.9	cis	Esophagus Mucosa	GTEx
rs7767592	RAET1G	cis	Skin Sun Exposed Lower leg	GTEx
rs7767592	RP11-350J20.5	cis	Skin Sun Exposed Lower leg	GTEx
rs7767592	RP11-350J20.9	cis	lung	GTEx
rs7767592	NUP43	Cis_1M	lymphoblastoid	RTeQTL
rs7767592	RAET1E	cis	Nerve Tibial	GTEx
rs7767592	RP11-350J20.9	cis	Skin Sun Exposed Lower leg	GTEx
rs7767592	RAET1E	cis	Esophagus Mucosa	GTEx
rs7767592	RP11-350J20.9	cis	Muscle Skeletal	GTEx
rs7767592	RP11-350J20.5	cis	Thyroid	GTEx

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150205600-150216000	Weak transcription	Right Atrium	heart
2	chr6:150205800-150216000	Weak transcription	Stomach Smooth Muscle	stomach
3	chr6:150206000-150216000	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr6:150209600-150215800	Weak transcription	Adipose Nuclei	Adipose
5	chr6:150209600-150216000	Weak transcription	Duodenum Mucosa	Duodenum
6	chr6:150209600-150222200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr6:150212000-150216000	Weak transcription	Placenta	Placenta
8	chr6:150212000-150216000	Weak transcription	Lung	lung
9	chr6:150212000-150216000	Weak transcription	Ovary	ovary
10	chr6:150212000-150216000	Weak transcription	Psoas Muscle	Psoas
11	chr6:150212000-150216200	Weak transcription	Fetal Muscle Trunk	muscle
12	chr6:150212200-150215800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr6:150212200-150215800	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr6:150212400-150216200	Weak transcription	Fetal Muscle Leg	muscle
15	chr6:150212600-150215800	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr6:150212600-150216000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr6:150212600-150216000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr6:150212600-150216000	Weak transcription	Esophagus	oesophagus
19	chr6:150212600-150216200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr6:150212600-150216200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr6:150212600-150216200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr6:150212600-150216200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr6:150212600-150216400	Weak transcription	HSMMtube	muscle
24	chr6:150212800-150215800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr6:150212800-150215800	Weak transcription	A549	lung
26	chr6:150212800-150215800	Weak transcription	Hela-S3	cervix
27	chr6:150212800-150215800	Weak transcription	NHDF-Ad	bronchial
28	chr6:150212800-150215800	Weak transcription	NHEK	skin
29	chr6:150212800-150216000	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr6:150212800-150216200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr6:150212800-150216200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr6:150212800-150216400	Weak transcription	Osteobl	bone
33	chr6:150212800-150216600	Weak transcription	HSMM	muscle
34	chr6:150213200-150216000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr6:150213200-150216000	Weak transcription	HMEC	breast
36	chr6:150213600-150216000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links