Variant report

Variant	rs11164798
Chromosome Location	chr1:93172782-93172783
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:93165676..93168735-chr1:93171801..93174880,3	K562	blood:

Variant related genes	Relation type
ENSG00000201317	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs11164827	0.81[JPT][hapmap]
rs3790451	0.84[CEU][hapmap];0.86[CHB][hapmap];0.93[GIH][hapmap];0.87[MEX][hapmap];0.84[MKK][hapmap];0.98[TSI][hapmap]

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	esv1794348	chr1:93090476-93192932	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv1802611	chr1:93090476-93219907	Active TSS Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv997898	chr1:93167128-93228156	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11164798	EPHX4	cis	parietal	SCAN
rs11164798	MTF2	cis	Skin Sun Exposed Lower leg	GTEx
rs11164798	CDC73	trans	cerebellum	SCAN

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:93098400-93205400	Weak transcription	NHLF	lung
2	chr1:93123400-93176200	Weak transcription	Psoas Muscle	Psoas
3	chr1:93123600-93178800	Weak transcription	Aorta	Aorta
4	chr1:93123600-93213400	Weak transcription	Gastric	stomach
5	chr1:93146600-93175600	Weak transcription	NHEK	skin
6	chr1:93155800-93213400	Weak transcription	Lung	lung
7	chr1:93156200-93172800	Weak transcription	HepG2	liver
8	chr1:93156200-93174000	Weak transcription	A549	lung
9	chr1:93157800-93175600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr1:93159000-93174800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr1:93160800-93174000	Weak transcription	Brain Angular Gyrus	brain
12	chr1:93160800-93175200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr1:93160800-93175200	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr1:93160800-93175200	Weak transcription	HSMM	muscle
15	chr1:93160800-93177000	Weak transcription	Ovary	ovary
16	chr1:93161000-93175200	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr1:93161000-93175600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr1:93161000-93176800	Weak transcription	Colon Smooth Muscle	Colon
19	chr1:93161000-93197400	Weak transcription	Primary B cells from cord blood	blood
20	chr1:93161000-93197800	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr1:93161000-93199000	Weak transcription	Left Ventricle	heart
22	chr1:93162200-93175400	Weak transcription	HSMMtube	muscle
23	chr1:93163800-93177400	Weak transcription	Placenta	Placenta
24	chr1:93163800-93190000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr1:93164200-93175400	Weak transcription	Small Intestine	intestine
26	chr1:93167000-93174000	Weak transcription	Fetal Heart	heart
27	chr1:93167200-93175200	Weak transcription	Osteobl	bone
28	chr1:93167400-93175200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr1:93167400-93175200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr1:93167600-93177800	Weak transcription	Primary monocytes fromperipheralblood	blood
31	chr1:93169000-93175200	Weak transcription	HMEC	breast
32	chr1:93169400-93174200	Weak transcription	Primary B cells from peripheral blood	blood
33	chr1:93170200-93175400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr1:93170200-93189800	Weak transcription	Monocytes-CD14+_RO01746	blood
35	chr1:93171200-93175200	Weak transcription	Fetal Intestine Small	intestine
36	chr1:93171400-93172800	Weak transcription	Hela-S3	cervix
37	chr1:93171400-93173400	Weak transcription	K562	blood
38	chr1:93171400-93175000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr1:93171400-93175400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr1:93171400-93175600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr1:93171400-93177400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr1:93171600-93175000	Weak transcription	HUES64 Cell Line	embryonic stem cell
43	chr1:93171600-93175200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr1:93171600-93175200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr1:93171600-93175200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr1:93171600-93175200	Weak transcription	Fetal Intestine Large	intestine
47	chr1:93171600-93175200	Weak transcription	NH-A	brain
48	chr1:93172200-93174200	Weak transcription	HUES48 Cell Line	embryonic stem cell
49	chr1:93172200-93174200	Weak transcription	Liver	Liver
50	chr1:93172400-93174000	Weak transcription	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links