Variant report

Variant	rs55832326
Chromosome Location	chr3:46997442-46997443
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:46988617..46992704-chr3:46994196..46998366,6	K562	blood:
2	chr3:46996489..46999843-chr3:47019877..47022356,3	MCF-7	breast:
3	chr3:46993041..46995087-chr3:46996208..46998631,3	K562	blood:
4	chr3:46983607..46987334-chr3:46993451..46998407,5	K562	blood:

Variant related genes	Relation type
ENSG00000160799	Chromatin interaction
ENSG00000160796	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs55633581	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55646108	1.00[AMR][1000 genomes]
rs55727789	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55730344	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56329054	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57341796	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58040348	1.00[AMR][1000 genomes]
rs58529346	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58558054	1.00[AMR][1000 genomes]
rs58918862	1.00[AMR][1000 genomes]
rs59614145	1.00[AMR][1000 genomes]
rs59846120	1.00[AMR][1000 genomes]
rs60017851	1.00[AMR][1000 genomes]
rs60100816	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60444519	1.00[AMR][1000 genomes]
rs73831407	0.83[AFR][1000 genomes]
rs73831409	1.00[AMR][1000 genomes]
rs73831411	1.00[AMR][1000 genomes]
rs73831412	1.00[AMR][1000 genomes]
rs73831414	1.00[AMR][1000 genomes]
rs73831415	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831421	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831424	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831425	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831428	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831430	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831431	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831432	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831444	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831446	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831448	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831449	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831450	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831451	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831453	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831454	1.00[AMR][1000 genomes]
rs73831455	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831457	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831458	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831459	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831466	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831467	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73831468	1.00[AMR][1000 genomes]
rs73831469	1.00[AMR][1000 genomes]
rs73831471	1.00[AMR][1000 genomes]
rs73831472	1.00[AMR][1000 genomes]
rs73831474	1.00[AMR][1000 genomes]
rs73831477	1.00[AMR][1000 genomes]
rs73831479	1.00[AMR][1000 genomes]
rs73831480	1.00[AMR][1000 genomes]
rs73831481	1.00[AMR][1000 genomes]
rs73831483	1.00[AMR][1000 genomes]
rs73831485	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv536558	chr3:46706571-47024756	Enhancers Bivalent Enhancer Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
2	nsv915922	chr3:46768104-47009805	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv876755	chr3:46895109-47061183	Genic enhancers Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv460526	chr3:46935527-47001350	Genic enhancers Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv3800	chr3:46961648-47007241	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv1012682	chr3:46973552-47016357	Genic enhancers Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	esv3461834	chr3:46977730-47173228	Active TSS Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
8	esv3461835	chr3:46977822-47173168	Enhancers Genic enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
9	esv3461836	chr3:46977822-47173168	Weak transcription Active TSS Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
10	nsv1009396	chr3:46994991-47048166	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46977000-47000000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:46985800-47004400	Enhancers	Primary T helper cells fromperipheralblood	blood
3	chr3:46988000-47003200	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr3:46989800-46998600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
5	chr3:46989800-47000600	Weak transcription	Brain Germinal Matrix	brain
6	chr3:46989800-47000600	Weak transcription	NHDF-Ad	bronchial
7	chr3:46989800-47001200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr3:46990000-47006800	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr3:46990200-46998200	Weak transcription	Aorta	Aorta
10	chr3:46990200-47000800	Weak transcription	Fetal Brain Female	brain
11	chr3:46990400-47000000	Enhancers	Primary T cells fromperipheralblood	blood
12	chr3:46991000-46998800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
13	chr3:46991000-47000200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr3:46991000-47001400	Weak transcription	Osteobl	bone
15	chr3:46991200-46997800	Weak transcription	Brain Angular Gyrus	brain
16	chr3:46991200-46997800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr3:46991200-46998000	Weak transcription	Brain Substantia Nigra	brain
18	chr3:46991200-46998600	Weak transcription	Rectal Smooth Muscle	rectum
19	chr3:46991200-46999600	Enhancers	A549	lung
20	chr3:46991200-47000000	Weak transcription	Fetal Lung	lung
21	chr3:46991200-47000200	Enhancers	Duodenum Mucosa	Duodenum
22	chr3:46991200-47000800	Weak transcription	Fetal Kidney	kidney
23	chr3:46991400-47000200	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr3:46991400-47000400	Weak transcription	HMEC	breast
25	chr3:46991800-46998600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr3:46992000-46998000	Enhancers	Fetal Muscle Leg	muscle
27	chr3:46992000-47001400	Weak transcription	NHLF	lung
28	chr3:46992400-46998600	Weak transcription	Hela-S3	cervix
29	chr3:46993000-46998400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr3:46993200-46999200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr3:46993200-46999200	Enhancers	Left Ventricle	heart
32	chr3:46993400-46998800	Enhancers	Spleen	Spleen
33	chr3:46993400-46999400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
34	chr3:46993400-47003600	Enhancers	Fetal Heart	heart
35	chr3:46993600-46998400	Genic enhancers	K562	blood
36	chr3:46993600-46999200	Enhancers	Adipose Nuclei	Adipose
37	chr3:46993600-46999200	Strong transcription	Fetal Stomach	stomach
38	chr3:46993600-46999200	Enhancers	Right Atrium	heart
39	chr3:46993600-47000000	Enhancers	Skeletal Muscle Female	skeletal muscle
40	chr3:46993600-47003200	Enhancers	Sigmoid Colon	Sigmoid Colon
41	chr3:46994200-46997800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
42	chr3:46994200-46998800	Enhancers	Psoas Muscle	Psoas
43	chr3:46994200-46998800	Enhancers	Right Ventricle	heart
44	chr3:46994200-47001200	Enhancers	Skeletal Muscle Male	skeletal muscle
45	chr3:46994200-47001600	Enhancers	Colon Smooth Muscle	Colon
46	chr3:46994200-47002200	Enhancers	Breast Myoepithelial Primary Cells	Breast
47	chr3:46994200-47003200	Genic enhancers	Fetal Intestine Small	intestine
48	chr3:46994400-46998800	Enhancers	Esophagus	oesophagus
49	chr3:46994600-46998200	Enhancers	Rectal Mucosa Donor 29	rectum
50	chr3:46994600-46999800	Enhancers	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links