Variant report

Variant	rs7372658
Chromosome Location	chr3:51532167-51532168
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:51429853..51431477-chr3:51530962..51533655,2	MCF-7	breast:
2	chr3:51427089..51429647-chr3:51532056..51534012,2	MCF-7	breast:
3	chr3:51532096..51536424-chr3:51702408..51707498,7	K562	blood:
4	chr3:51428575..51432934-chr3:51531325..51537191,8	K562	blood:

Variant related genes	Relation type
ENSG00000164081	Chromatin interaction
ENSG00000179837	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1031925	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1055429	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10865970	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11130292	0.82[AMR][1000 genomes]
rs11130293	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11721253	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1383251	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1480354	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1542574	0.83[ASN][1000 genomes]
rs1552074	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2127655	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2164599	0.82[EUR][1000 genomes]
rs4317086	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs4355273	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs4611808	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4687568	0.88[AMR][1000 genomes]
rs4687569	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4687721	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4687734	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs4974105	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4974106	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6445620	0.81[AMR][1000 genomes]
rs6445628	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6445791	0.84[AMR][1000 genomes]
rs6771081	0.81[AMR][1000 genomes]
rs6775666	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs6787312	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs6793900	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6809155	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs751075	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7625006	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7625821	0.81[EUR][1000 genomes]
rs9311469	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014464	chr3:51220151-51909780	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7372658	TEX264	cis	Nerve Tibial	GTEx
rs7372658	TEX264	cis	Esophagus Muscularis	GTEx
rs7372658	TEX264	cis	Artery Tibial	GTEx

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:51491400-51532800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr3:51495000-51532600	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr3:51499400-51532800	Weak transcription	Fetal Heart	heart
4	chr3:51500600-51532800	Weak transcription	Fetal Kidney	kidney
5	chr3:51501000-51532400	Weak transcription	Psoas Muscle	Psoas
6	chr3:51501000-51532800	Weak transcription	NH-A	brain
7	chr3:51504800-51533000	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr3:51505000-51533000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr3:51506600-51532600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr3:51506600-51532600	Weak transcription	K562	blood
11	chr3:51512400-51533000	Weak transcription	Aorta	Aorta
12	chr3:51515400-51532600	Weak transcription	HMEC	breast
13	chr3:51515400-51532800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr3:51516200-51533000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr3:51516400-51532800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:51516400-51533000	Weak transcription	Stomach Mucosa	stomach
17	chr3:51521600-51532600	Weak transcription	NHDF-Ad	bronchial
18	chr3:51524400-51533000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr3:51524600-51532400	Weak transcription	GM12878-XiMat	blood
20	chr3:51524600-51532800	Weak transcription	Brain Angular Gyrus	brain
21	chr3:51524600-51532800	Weak transcription	HSMM	muscle
22	chr3:51525600-51532400	Weak transcription	Osteobl	bone
23	chr3:51525600-51532800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr3:51525600-51532800	Weak transcription	Brain Substantia Nigra	brain
25	chr3:51525800-51533000	Weak transcription	Colonic Mucosa	Colon
26	chr3:51526000-51532600	Weak transcription	Colon Smooth Muscle	Colon
27	chr3:51526000-51532800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr3:51526000-51532800	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr3:51526200-51532600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr3:51526200-51532600	Weak transcription	Brain Germinal Matrix	brain
31	chr3:51526200-51532600	Weak transcription	A549	lung
32	chr3:51526200-51532800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr3:51526200-51533000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr3:51526200-51533000	Weak transcription	Esophagus	oesophagus
35	chr3:51526200-51533000	Weak transcription	Right Ventricle	heart
36	chr3:51526200-51533200	Weak transcription	Small Intestine	intestine
37	chr3:51526200-51533200	Weak transcription	Spleen	Spleen
38	chr3:51526400-51532600	Weak transcription	Primary neutrophils fromperipheralblood	blood
39	chr3:51526400-51532600	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr3:51526400-51532600	Weak transcription	Stomach Smooth Muscle	stomach
41	chr3:51526400-51532800	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr3:51526400-51532800	Weak transcription	Brain Cingulate Gyrus	brain
43	chr3:51526400-51532800	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr3:51526400-51532800	Weak transcription	Fetal Lung	lung
45	chr3:51526400-51532800	Weak transcription	Rectal Smooth Muscle	rectum
46	chr3:51526400-51533000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr3:51526400-51533000	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr3:51526600-51532400	Weak transcription	HUVEC	blood vessel
49	chr3:51526600-51532600	Weak transcription	NHEK	skin
50	chr3:51526600-51532800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links