Variant report

Variant	rs7771014
Chromosome Location	chr6:150205446-150205447
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr6:150205420-150205570	HCPEpiC	choroid plexus:	n/a	n/a
2	RAD21	chr6:150205374-150205831	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
RAET1E-AS1	TF binding region

Extended variants
information (count: 61 )
Associated
traits (count: 11 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs1334510	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2095376	0.89[EUR][1000 genomes]
rs2342767	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2342768	0.82[EUR][1000 genomes]
rs2342769	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2342770	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3823021	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4458704	0.88[EUR][1000 genomes]
rs4869763	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4869764	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4870116	0.86[EUR][1000 genomes]
rs6557133	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6933882	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6935829	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6939761	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7740145	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7742692	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7742993	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7744821	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7747435	0.89[EUR][1000 genomes]
rs7747457	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7753544	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7756850	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7757972	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7757984	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7758020	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7758033	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7763719	0.81[EUR][1000 genomes]
rs7763849	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7764376	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7767588	0.92[EUR][1000 genomes]
rs7767592	0.92[EUR][1000 genomes]
rs7768626	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7768665	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7769118	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7774787	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9322225	0.85[EUR][1000 genomes]
rs9322228	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9371215	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9371223	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9371504	0.86[EUR][1000 genomes]
rs9371505	0.86[EUR][1000 genomes]
rs9371533	0.92[EUR][1000 genomes]
rs9371542	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9371544	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9383577	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9383584	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9383912	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9383913	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9383914	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9383921	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9383940	0.90[EUR][1000 genomes]
rs9397058	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9397398	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9397420	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9397434	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9968871	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9969044	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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

mRNA abundance (count:11)

SNP	Gene	Cis/trans	Tissue	Source
rs7771014	RP11-350J20.5	cis	Skin Sun Exposed Lower leg	GTEx
rs7771014	RAET1G	cis	Artery Tibial	GTEx
rs7771014	RP11-350J20.9	cis	lung	GTEx
rs7771014	C6orf72	Cis_1M	lymphoblastoid	RTeQTL
rs7771014	NUP43	Cis_1M	lymphoblastoid	RTeQTL
rs7771014	LRP11	cis	Skin Sun Exposed Lower leg	GTEx
rs7771014	RP11-350J20.9	cis	Esophagus Mucosa	GTEx
rs7771014	RAET1G	cis	Thyroid	GTEx
rs7771014	RP11-350J20.5	cis	Thyroid	GTEx
rs7771014	RP11-350J20.5	cis	Artery Tibial	GTEx
rs7771014	RAET1G	cis	Esophagus Mucosa	GTEx

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150202800-150208600	Weak transcription	HSMMtube	muscle
2	chr6:150204200-150206800	Weak transcription	Hela-S3	cervix
3	chr6:150205000-150205800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr6:150205000-150205800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr6:150205000-150205800	Enhancers	Fetal Lung	lung
6	chr6:150205000-150206000	Enhancers	NHLF	lung
7	chr6:150205000-150210400	Enhancers	HMEC	breast
8	chr6:150205200-150205600	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
9	chr6:150205200-150205600	Enhancers	Placenta	Placenta
10	chr6:150205200-150205600	Enhancers	NHDF-Ad	bronchial
11	chr6:150205200-150205800	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr6:150205200-150205800	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr6:150205200-150205800	Enhancers	Stomach Smooth Muscle	stomach
14	chr6:150205200-150205800	Bivalent Enhancer	K562	blood
15	chr6:150205200-150206000	Enhancers	Adipose Nuclei	Adipose
16	chr6:150205400-150205600	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr6:150205400-150205600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr6:150205400-150205600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr6:150205400-150205600	Enhancers	Fetal Intestine Small	intestine
20	chr6:150205400-150205600	Bivalent Enhancer	Fetal Stomach	stomach
21	chr6:150205400-150205600	Flanking Active TSS	Right Atrium	heart
22	chr6:150205400-150205600	Enhancers	Skeletal Muscle Male	skeletal muscle
23	chr6:150205400-150205600	Enhancers	NHEK	skin
24	chr6:150205400-150205800	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
25	chr6:150205400-150205800	Bivalent Enhancer	ES-WA7 Cell Line	embryonic stem cell
26	chr6:150205400-150205800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr6:150205400-150205800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:150205400-150205800	Weak transcription	Esophagus	oesophagus
29	chr6:150205400-150205800	Enhancers	Fetal Muscle Trunk	muscle
30	chr6:150205400-150206000	Enhancers	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links