Variant report

Variant	rs550485425
Chromosome Location	chr3:145833951-145833952
allele	C/T
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:145831639..145836013-chr3:145876068..145880595,7	MCF-7	breast:
2	chr3:145783644..145786560-chr3:145833867..145835451,2	MCF-7	breast:
3	chr3:145832668..145836066-chr3:145839232..145841565,3	MCF-7	breast:
4	chr3:145832521..145835172-chr3:145842139..145845404,4	MCF-7	breast:
5	chr3:145786878..145789402-chr3:145831602..145833986,2	MCF-7	breast:
6	chr3:145829569..145840903-chr3:145873254..145880972,31	MCF-7	breast:
7	chr3:145833525..145834065-chr3:145843449..145844000,2	MCF-7	breast:
8	chr3:145832179..145836696-chr3:145881447..145885871,6	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000152952	Chromatin interaction
ENSG00000240032	Chromatin interaction

Extended variants
information (count: 3 )
Associated
traits (count: 0)

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	nsv525829	chr3:145614317-145863779	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv4046	chr3:145693249-145880189	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv877613	chr3:145833232-145912055	Weak transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:145782800-145843200	Weak transcription	Pancreas	Pancrea
2	chr3:145784600-145848800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr3:145790400-145843200	Weak transcription	Right Ventricle	heart
4	chr3:145798800-145839200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:145810400-145849800	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chr3:145810800-145851200	Weak transcription	Brain Hippocampus Middle	brain
7	chr3:145812200-145839200	Weak transcription	Rectal Smooth Muscle	rectum
8	chr3:145814200-145841000	Weak transcription	Lung	lung
9	chr3:145816000-145836800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr3:145816400-145842000	Weak transcription	Colonic Mucosa	Colon
11	chr3:145819800-145841800	Weak transcription	Fetal Heart	heart
12	chr3:145819800-145849200	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr3:145820000-145834000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr3:145821000-145849800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:145821200-145835200	Weak transcription	Colon Smooth Muscle	Colon
16	chr3:145821200-145835400	Weak transcription	Stomach Smooth Muscle	stomach
17	chr3:145822800-145836800	Weak transcription	Ovary	ovary
18	chr3:145824600-145835000	Weak transcription	HMEC	breast
19	chr3:145824600-145839600	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr3:145825000-145835400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr3:145827000-145855200	Weak transcription	Aorta	Aorta
22	chr3:145827400-145836600	Weak transcription	Adipose Nuclei	Adipose
23	chr3:145827400-145836600	Weak transcription	HSMMtube	muscle
24	chr3:145827400-145840200	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr3:145827400-145842000	Weak transcription	Duodenum Mucosa	Duodenum
26	chr3:145828600-145837200	Strong transcription	HSMM	muscle
27	chr3:145831400-145848400	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr3:145831600-145834600	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
29	chr3:145831800-145834600	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr3:145832000-145835000	Strong transcription	Muscle Satellite Cultured Cells	--
31	chr3:145832000-145836800	Weak transcription	Placenta	Placenta
32	chr3:145832000-145870800	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr3:145832200-145835600	Weak transcription	Psoas Muscle	Psoas
34	chr3:145832200-145836800	Weak transcription	Left Ventricle	heart
35	chr3:145832200-145838400	Weak transcription	Fetal Stomach	stomach
36	chr3:145832400-145834200	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr3:145832400-145834600	Enhancers	HepG2	liver
38	chr3:145832400-145835000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr3:145832400-145835400	Strong transcription	Osteobl	bone
40	chr3:145832600-145848400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr3:145832800-145834600	Enhancers	Liver	Liver
42	chr3:145833000-145834200	Genic enhancers	A549	lung
43	chr3:145833000-145834800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr3:145833000-145835200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
45	chr3:145833000-145835600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr3:145833000-145835600	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
47	chr3:145833000-145837400	Strong transcription	HUVEC	blood vessel
48	chr3:145833200-145834400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr3:145833200-145835000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr3:145833200-145837200	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links