Variant report

Variant	rs12652072
Chromosome Location	chr5:154034179-154034180
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr5:154029092..154031535-chr5:154031652..154034551,2	K562	blood:
2	chr5:154034090..154035820-chr5:154141862..154143840,2	K562	blood:
3	chr5:154032924..154035953-chr5:154060890..154064401,4	K562	blood:
4	chr5:154034077..154035807-chr5:154037417..154039966,2	K562	blood:
5	chr5:154032750..154034923-chr5:154157447..154159549,2	K562	blood:
6	chr5:154029914..154035402-chr5:154132674..154138757,12	K562	blood:
7	chr5:154032204..154034670-chr5:154258482..154261349,2	MCF-7	breast:
8	chr5:154032959..154035476-chr5:154316214..154318624,2	MCF-7	breast:
9	chr5:154033358..154036952-chr5:154037115..154039646,4	K562	blood:
10	chr5:154025141..154035158-chr5:154131407..154139853,27	K562	blood:
11	chr5:154028334..154034938-chr5:154133035..154137591,9	MCF-7	breast:
12	chr5:154031990..154035477-chr5:154237089..154239415,3	K562	blood:
13	chr5:154033389..154035257-chr5:154121200..154122760,2	K562	blood:
14	chr5:154032586..154035890-chr5:154134130..154138220,4	MCF-7	breast:
15	chr5:154032703..154035820-chr5:154141862..154144774,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000170271	Chromatin interaction
ENSG00000155508	Chromatin interaction
ENSG00000082516	Chromatin interaction
ENSG00000155506	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10875591	0.86[ASN][1000 genomes]
rs11167697	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11167698	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12515092	0.89[ASN][1000 genomes]
rs1811291	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1972616	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2396995	0.86[ASN][1000 genomes]
rs28794278	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4958753	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4958758	1.00[YRI][hapmap];0.82[ASN][1000 genomes]
rs59189695	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6580099	0.83[ASN][1000 genomes]
rs72797553	0.83[ASN][1000 genomes]
rs7444282	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7445576	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs918365	0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs965235	0.84[ASW][hapmap]

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	esv3401644	chr5:153898681-154058368	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:154027400-154034600	Weak transcription	Lung	lung
2	chr5:154032200-154034800	Enhancers	Pancreas	Pancrea
3	chr5:154032400-154034200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr5:154032400-154034400	Enhancers	Fetal Intestine Small	intestine
5	chr5:154032400-154034600	Enhancers	Adipose Nuclei	Adipose
6	chr5:154032400-154034800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr5:154032400-154034800	Enhancers	Fetal Intestine Large	intestine
8	chr5:154032600-154034800	Enhancers	HMEC	breast
9	chr5:154032800-154034200	Flanking Active TSS	Duodenum Mucosa	Duodenum
10	chr5:154032800-154035000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr5:154032800-154035000	Enhancers	Fetal Stomach	stomach
12	chr5:154032800-154035000	Enhancers	Rectal Mucosa Donor 31	rectum
13	chr5:154033200-154034600	Enhancers	Skeletal Muscle Female	skeletal muscle
14	chr5:154033200-154035000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr5:154033200-154035000	Enhancers	Primary B cells from peripheral blood	blood
16	chr5:154033200-154035000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr5:154033200-154035000	Enhancers	GM12878-XiMat	blood
18	chr5:154033200-154035200	Enhancers	Fetal Muscle Leg	muscle
19	chr5:154033400-154034200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
20	chr5:154033400-154034200	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
21	chr5:154033400-154034400	Weak transcription	A549	lung
22	chr5:154033400-154034600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr5:154033400-154034800	Enhancers	Fetal Lung	lung
24	chr5:154033400-154035200	Enhancers	Primary monocytes fromperipheralblood	blood
25	chr5:154033400-154035200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
26	chr5:154033600-154034600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr5:154033600-154034600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr5:154033600-154034800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
29	chr5:154033600-154034800	Flanking Active TSS	HUVEC	blood vessel
30	chr5:154033600-154035000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr5:154033600-154035000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr5:154033600-154035000	Enhancers	HepG2	liver
33	chr5:154033800-154034200	Flanking Active TSS	Fetal Heart	heart
34	chr5:154033800-154034200	Active TSS	Ovary	ovary
35	chr5:154033800-154034200	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
36	chr5:154033800-154034200	Active TSS	Right Atrium	heart
37	chr5:154033800-154034200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
38	chr5:154033800-154034200	Active TSS	NHLF	lung
39	chr5:154033800-154034400	Active TSS	Pancreatic Islets	Pancreatic Islet
40	chr5:154033800-154034600	Active TSS	Stomach Smooth Muscle	stomach
41	chr5:154033800-154034600	Weak transcription	Spleen	Spleen
42	chr5:154033800-154034800	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr5:154033800-154034800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
44	chr5:154033800-154034800	Enhancers	Liver	Liver
45	chr5:154033800-154034800	Weak transcription	Fetal Muscle Trunk	muscle
46	chr5:154033800-154034800	Weak transcription	Fetal Thymus	thymus
47	chr5:154033800-154035000	Flanking Active TSS	K562	blood
48	chr5:154034000-154034200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr5:154034000-154034200	Enhancers	Primary hematopoietic stem cells	blood
50	chr5:154034000-154034200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links