Variant report

Variant	rs73854743
Chromosome Location	chr3:119647611-119647612
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:119646913..119649033-chr3:119811822..119814380,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000082701	Chromatin interaction
ENSG00000242622	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs55739402	0.92[AFR][1000 genomes]
rs55849075	0.92[AFR][1000 genomes]
rs56181436	0.92[AFR][1000 genomes]
rs56897578	0.92[AFR][1000 genomes]
rs57028282	1.00[AFR][1000 genomes]
rs59890455	0.92[AFR][1000 genomes]
rs61091679	0.84[AFR][1000 genomes]
rs61662753	0.85[AFR][1000 genomes]
rs73854723	0.92[AFR][1000 genomes]
rs73854725	1.00[AFR][1000 genomes]
rs73854727	0.92[AFR][1000 genomes]
rs73854732	0.92[AFR][1000 genomes]
rs73854734	1.00[AFR][1000 genomes]
rs73854742	1.00[AFR][1000 genomes]
rs73854746	0.84[AFR][1000 genomes]
rs73854748	1.00[AFR][1000 genomes]
rs73854754	0.92[AFR][1000 genomes]
rs73854756	0.83[AFR][1000 genomes]
rs73854758	0.83[AFR][1000 genomes]
rs73854759	0.92[AFR][1000 genomes]
rs73854760	0.92[AFR][1000 genomes]
rs73854768	0.92[AFR][1000 genomes]
rs73854771	0.92[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949589	chr3:119560606-120175917	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv829696	chr3:119567659-119711405	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1001476	chr3:119575386-120075417	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
4	nsv536704	chr3:119575386-120075417	Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119546000-119663400	Weak transcription	Lung	lung
2	chr3:119597600-119659000	Weak transcription	Gastric	stomach
3	chr3:119608200-119677800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr3:119611200-119667000	Weak transcription	Pancreas	Pancrea
5	chr3:119611400-119649400	Weak transcription	Brain Hippocampus Middle	brain
6	chr3:119611400-119682200	Weak transcription	HSMMtube	muscle
7	chr3:119625000-119668200	Weak transcription	Hela-S3	cervix
8	chr3:119628200-119655600	Weak transcription	Fetal Heart	heart
9	chr3:119628200-119663200	Weak transcription	Right Atrium	heart
10	chr3:119628400-119651000	Weak transcription	Right Ventricle	heart
11	chr3:119629600-119672200	Weak transcription	Fetal Stomach	stomach
12	chr3:119630800-119663200	Weak transcription	Esophagus	oesophagus
13	chr3:119630800-119697400	Weak transcription	Thymus	Thymus
14	chr3:119631000-119717000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr3:119631200-119647800	Weak transcription	Duodenum Smooth Muscle	Duodenum
16	chr3:119631200-119650400	Weak transcription	Small Intestine	intestine
17	chr3:119631400-119660800	Weak transcription	Fetal Muscle Leg	muscle
18	chr3:119631600-119656000	Weak transcription	NHEK	skin
19	chr3:119633400-119655600	Weak transcription	Fetal Kidney	kidney
20	chr3:119634000-119656200	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr3:119635000-119649400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr3:119635000-119652000	Weak transcription	Adipose Nuclei	Adipose
23	chr3:119635000-119665400	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr3:119635000-119667000	Weak transcription	Placenta	Placenta
25	chr3:119635400-119664600	Weak transcription	HMEC	breast
26	chr3:119636400-119667200	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr3:119638800-119648200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr3:119638800-119655400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
29	chr3:119638800-119656000	Weak transcription	Primary T cells from cord blood	blood
30	chr3:119639400-119651600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr3:119640000-119649200	Weak transcription	Fetal Brain Female	brain
32	chr3:119640000-119649400	Weak transcription	Primary T helper cells PMA-I stimulated	--
33	chr3:119640000-119650600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr3:119640000-119663800	Weak transcription	Rectal Mucosa Donor 31	rectum
35	chr3:119640200-119655800	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr3:119640400-119649400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr3:119640400-119656000	Weak transcription	Primary hematopoietic stem cells	blood
38	chr3:119640600-119649200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr3:119640600-119649200	Weak transcription	A549	lung
40	chr3:119640600-119664400	Weak transcription	HSMM	muscle
41	chr3:119640600-119665000	Weak transcription	Primary B cells from peripheral blood	blood
42	chr3:119640600-119672400	Weak transcription	Osteobl	bone
43	chr3:119640800-119658000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr3:119640800-119665400	Weak transcription	Fetal Thymus	thymus
45	chr3:119641000-119648600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr3:119641000-119655400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr3:119641000-119661800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr3:119641000-119662600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr3:119641000-119663800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr3:119641000-119681600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links