Variant report

Variant	rs73854759
Chromosome Location	chr3:119711290-119711291
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:119710588..119712437-chr3:119812557..119814638,2	MCF-7	breast:
2	chr3:119710167..119712500-chr3:119810883..119812424,2	MCF-7	breast:
3	chr3:119709355..119712243-chr3:119721755..119723709,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000242622	Chromatin interaction
ENSG00000082701	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs55739402	0.83[AFR][1000 genomes]
rs55849075	1.00[AFR][1000 genomes]
rs56181436	1.00[AFR][1000 genomes]
rs56897578	1.00[AFR][1000 genomes]
rs57028282	0.92[AFR][1000 genomes]
rs59890455	0.83[AFR][1000 genomes]
rs61091679	0.92[AFR][1000 genomes]
rs73854723	0.85[AFR][1000 genomes]
rs73854725	0.92[AFR][1000 genomes]
rs73854727	0.85[AFR][1000 genomes]
rs73854732	0.83[AFR][1000 genomes]
rs73854734	0.92[AFR][1000 genomes]
rs73854742	0.92[AFR][1000 genomes]
rs73854743	0.92[AFR][1000 genomes]
rs73854748	0.92[AFR][1000 genomes]
rs73854754	1.00[AFR][1000 genomes]
rs73854756	0.92[AFR][1000 genomes]
rs73854758	0.92[AFR][1000 genomes]
rs73854760	1.00[AFR][1000 genomes]
rs73854763	0.88[AFR][1000 genomes]
rs73854768	1.00[AFR][1000 genomes]
rs73854771	1.00[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:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119631000-119717000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr3:119656600-119718400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr3:119665800-119716800	Weak transcription	HSMM	muscle
4	chr3:119681200-119723200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr3:119687200-119716600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr3:119689000-119711800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr3:119689000-119722600	Weak transcription	Gastric	stomach
8	chr3:119692400-119717000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr3:119692400-119723200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr3:119693600-119732200	Weak transcription	A549	lung
11	chr3:119700600-119722800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr3:119700800-119717000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr3:119701000-119720000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr3:119701000-119722600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr3:119701400-119712400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr3:119701800-119717200	Weak transcription	Fetal Thymus	thymus
17	chr3:119706000-119711400	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr3:119706000-119717000	Weak transcription	Fetal Muscle Trunk	muscle
19	chr3:119706200-119717000	Weak transcription	Primary B cells from cord blood	blood
20	chr3:119707400-119712000	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr3:119707400-119716600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr3:119707600-119712000	Weak transcription	Small Intestine	intestine
23	chr3:119708200-119716800	Weak transcription	Primary hematopoietic stem cells	blood
24	chr3:119708800-119711400	Weak transcription	Primary T helper cells fromperipheralblood	blood
25	chr3:119709000-119722600	Weak transcription	Ovary	ovary
26	chr3:119709200-119723000	Weak transcription	Spleen	Spleen
27	chr3:119709400-119716800	Weak transcription	Primary monocytes fromperipheralblood	blood
28	chr3:119709600-119717000	Weak transcription	Left Ventricle	heart
29	chr3:119709800-119712600	Weak transcription	Psoas Muscle	Psoas
30	chr3:119710000-119712000	Weak transcription	Primary neutrophils fromperipheralblood	blood
31	chr3:119710200-119711800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr3:119710200-119712400	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr3:119710200-119716400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr3:119710200-119716600	Weak transcription	HMEC	breast
35	chr3:119710200-119716800	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr3:119710200-119716800	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr3:119710200-119719000	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr3:119710200-119722600	Weak transcription	Stomach Mucosa	stomach
39	chr3:119710200-119730800	Weak transcription	Rectal Smooth Muscle	rectum
40	chr3:119710400-119711800	Weak transcription	Hela-S3	cervix
41	chr3:119710400-119712000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
42	chr3:119710400-119712000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr3:119710400-119712400	Weak transcription	NHDF-Ad	bronchial
44	chr3:119710400-119716400	Weak transcription	Monocytes-CD14+_RO01746	blood
45	chr3:119710400-119717000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr3:119710400-119717200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr3:119710400-119722800	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr3:119710600-119711400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
49	chr3:119710600-119711800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr3:119710600-119711800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links