Vegfb (vascular endothelial growth factor B)

Gene: Vegfb (vascular endothelial growth factor B) Ictidomys tridecemlineatus

Analyze

Symbol:

Vegfb

Name:

vascular endothelial growth factor B

RGD ID:

12510937

Description:

ENCODES a protein that exhibits chemoattractant activity (inferred); growth factor activity (inferred); heparin binding (inferred); INVOLVED IN angiogenesis (ortholog); cardiac muscle contraction (ortholog); coronary vasculature development (ortholog); PARTICIPATES IN vascular endothelial growth factor signaling pathway; ASSOCIATED WITH Brain Injuries (ortholog); Breast Neoplasms (ortholog); Choroidal Neovascularization (ortholog); FOUND IN extracellular region (inferred); extracellular space (inferred); membrane (inferred)

Type:

protein-coding

RefSeq Status:

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404947	8,520,812 - 8,523,909 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936599	4,962,222 - 4,966,264 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936599	4,963,161 - 4,966,258 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Brain Injuries (ISO)

Breast Neoplasms (ISO)

Choroidal Neovascularization (ISO)

Disease Progression (ISO)

Experimental Diabetes Mellitus (ISO)

high grade glioma (ISO)

intellectual disability (ISO)

leukocyte adhesion deficiency 3 (ISO)

myocardial infarction (ISO)

pancreatic cancer (ISO)

pulmonary hypertension (ISO)

Retinal Neovascularization (ISO)

retinal vein occlusion (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

angiogenesis (ISO)

cardiac muscle contraction (IEA,ISO)

coronary vasculature development (IEA,ISO)

heart development (IEA,ISO)

induction of positive chemotaxis (IEA)

negative regulation of apoptotic process (ISO)

negative regulation of gene expression (ISO)

negative regulation of neuron apoptotic process (ISO)

positive chemotaxis (IEA)

positive regulation of angiogenesis (IEA)

positive regulation of cell division (IEA)

positive regulation of endothelial cell proliferation (IEA)

positive regulation of ERK1 and ERK2 cascade (ISO)

positive regulation of mast cell chemotaxis (IEA)

positive regulation of peptidyl-tyrosine phosphorylation (ISO)

positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction (ISO)

positive regulation of protein phosphorylation (IEA)

positive regulation of vascular endothelial growth factor receptor signaling pathway (ISO)

positive regulation of vascular permeability (ISO)

positive regulation of vascular wound healing (ISO)

protein O-linked glycosylation (IEA,ISO)

response to hypoxia (IEA)

response to xenobiotic stimulus (ISO)

sprouting angiogenesis (IEA)

vascular endothelial growth factor receptor signaling pathway (IEA)

vascular endothelial growth factor signaling pathway (IEA)

Cellular Component

extracellular region (IEA)

extracellular space (IEA)

membrane (IEA)

Molecular Function

chemoattractant activity (IEA)

growth factor activity (IEA)

heparin binding (IEA)

identical protein binding (IEA)

protein binding (ISO)

vascular endothelial growth factor receptor 1 binding (IEA)

vascular endothelial growth factor receptor 2 binding (IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

vascular endothelial growth factor signaling pathway (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Vegfb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404947	8,520,812 - 8,523,909 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936599	4,962,222 - 4,966,264 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936599	4,963,161 - 4,966,258 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

VEGFB
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	11	64,234,584 - 64,239,264 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	11	64,234,584 - 64,239,264 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	11	64,002,056 - 64,006,736 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	11	63,758,842 - 63,762,835 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	11	63,758,841 - 63,762,834	NCBI
Celera	11	61,312,403 - 61,333,143 (+)	NCBI		Celera
Cytogenetic Map	11	q13.1	NCBI
HuRef	11	60,330,131 - 60,334,631 (+)	NCBI		HuRef
CHM1_1	11	63,885,273 - 63,889,739 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	11	64,224,529 - 64,229,291 (+)	NCBI		T2T-CHM13v2.0

Vegfb
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	19	6,959,840 - 6,965,019 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	19	6,959,841 - 6,965,019 (-)	Ensembl		GRCm39 Ensembl
GRCm38	19	6,982,472 - 6,987,651 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	19	6,982,473 - 6,987,651 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	19	7,056,962 - 7,062,141 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	19	7,049,516 - 7,054,647 (-)	NCBI		MGSCv36	mm8
Celera	19	6,759,390 - 6,764,564 (-)	NCBI		Celera
Cytogenetic Map	19	A	NCBI
cM Map	19	5.12	NCBI

Vegfb
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	213,601,570 - 213,607,254 (-)	NCBI		GRCr8
mRatBN7.2	1	204,172,297 - 204,178,046 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	204,172,225 - 204,177,944 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	212,524,385 - 212,527,843 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	219,619,564 - 219,623,203 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	212,310,619 - 212,314,258 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	222,237,000 - 222,242,786 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	222,239,022 - 222,242,644 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	229,227,775 - 229,233,462 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	209,657,632 - 209,661,271 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	1	209,817,216 - 209,818,528 (-)	NCBI
Celera	1	201,707,924 - 201,711,395 (-)	NCBI		Celera
Cytogenetic Map	1	q43	NCBI

Vegfb
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955422	20,840,055 - 20,843,225 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955422	20,840,055 - 20,843,182 (-)	NCBI	ChiLan1.0	ChiLan1.0

VEGFB
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	9	65,461,767 - 65,465,971 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	11	66,506,924 - 66,511,115 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	11	59,591,750 - 59,595,926 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3

VEGFB
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	18	52,821,348 - 52,824,649 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	18	52,821,365 - 52,824,655 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	18	51,428,177 - 51,431,373 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	18	53,866,506 - 53,869,702 (-)	NCBI		ROS_Cfam_1.0
UMICH_Zoey_3.1	18	52,969,350 - 52,972,544 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	18	52,544,911 - 52,548,106 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	18	53,328,822 - 53,332,018 (-)	NCBI		UU_Cfam_GSD_1.0

VEGFB
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	7,872,870 - 7,876,118 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	7,872,873 - 7,876,149 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	2	6,939,765 - 6,943,006 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

VEGFB
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	1	9,997,820 - 10,001,518 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	1	9,997,665 - 10,001,429 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666038	107,336,571 - 107,340,450 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Vegfb
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624767	22,068,107 - 22,071,491 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624767	22,068,107 - 22,071,731 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005333575	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000006	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSTOT00000014289 ⟹ ENSSTOP00000012797

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936599	4,962,222 - 4,966,264 (-)	Ensembl

RefSeq Acc Id:

XM_005333575 ⟹ XP_005333632

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024404947	8,520,812 - 8,523,909 (-)	NCBI
SpeTri2.0	NW_004936599	4,963,161 - 4,966,258 (-)	NCBI

Sequence:

show sequence

CCGCCTGCTGTTCGCCGTGCTCCTGCAGCTGGCCCCAGCCCAGGCCCCTGTCTCCCAGCCTGAT
GTCCCTGGCCACCAGAAGAAAGTGGTGTCATGGATAGACGTGTATGCTCGTGCCACCTGCCAGC
CTCGGGAGGTGGTAGTGCCCCTGACTGTGGAGCTCATGGGTACTGTGGCCAAACAACTGGTGCC
TAGCTGTGTGACTGTGCAGCGCTGCGGTGGCTGCTGCCCTGACGATGGCCTGGAGTGCGTGCCC
ACCGGGCAGCACCAAGTCCGAATGCAGATCCTCATGATCCGGTATCCAAGCAGTCAGCTGGGGG
AGATGTCCCTGGAAGAACACAGCCAATGTGAATGCAGACCAAAAAAAAAGGAGAGTGCTGTGAA
GCCAGACAGCCCCAGGACCCCCTGCCCACGCTGCACCCAGCGCCGCCAGCGCCCTGACCCACGG
ACCTGCCACTGCCGCTGCCGACGCCGCAGCTTCCTCCGTTGCCAAGGGCGGGGCTTAGAGCTCA
ACCCACACACCTGCAGGTGCCGGAAGCTGCGAAGGTGACACATTACCTTTCAGACTCAGTGGGC
CACTTGCTTCACAGGCCACACCCCAGTGGGAGAAGAGAAGAGCCTGGGGAGAAGAGCCAGCCCC
AAGTCCTGGAATCTGCTTTAGGACCTGGGCTTCTCAGAGGGCTTTCCTGCCATCGTTTGTCTCC
CGAGGCTGCCATCTAACAAAGTTGATGAGGAGATTTGGCAGCAGCAAGAGGGGTCACATGCCAG
CTTGGGGGGATGGGGTGTTGCCTCAGTTTTTAACTAACTTGTGCAACTGAGTGTCTTACACCTG
GCTCCTGCCTCCCCTAAGAAGACCCCAACCTCTGCAAATAATGGGCTTTGATACAAAAACTGTG
ACCCCCCCACACCCTGATAAAAGAGATGGAAGGAGCTA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005333632	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000012797.3
GenBank Protein	KAG3284788	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_005333632 ⟸ XM_005333575
- Sequence:	show sequence MGTVAKQLVPSCVTVQRCGGCCPDDGLECVPTGQHQVRMQILMIRYPSSQLGEMSLEEHSQCEC RPKKKESAVKPDSPRTPCPRCTQRRQRPDPRTCHCRCRRRSFLRCQGRGLELNPHTCRCRKLRR hide sequence

RefSeq Acc Id:

ENSSTOP00000012797 ⟸ ENSSTOT00000014289

Protein Domains

Platelet-derived growth factor (PDGF) family

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000014290	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000014289.3	UniProtKB/TrEMBL
Gene3D-CATH	2.10.160.10	UniProtKB/TrEMBL
	2.10.90.10	UniProtKB/TrEMBL
InterPro	Cystine-knot_cytokine	UniProtKB/TrEMBL
	PD_growth_factor_CS	UniProtKB/TrEMBL
	PDGF/VEGF_dom	UniProtKB/TrEMBL
	VEGF_C_sf	UniProtKB/TrEMBL
NCBI Gene	Vegfb	ENTREZGENE
PANTHER	VASCULAR ENDOTHELIAL GROWTH FACTOR	UniProtKB/TrEMBL
	VASCULAR ENDOTHELIAL GROWTH FACTOR B	UniProtKB/TrEMBL
Pfam	PDGF	UniProtKB/TrEMBL
PROSITE	PDGF_1	UniProtKB/TrEMBL
	PDGF_2	UniProtKB/TrEMBL
SMART	PDGF	UniProtKB/TrEMBL
Superfamily-SCOP	SSF57501	UniProtKB/TrEMBL
	SSF57593	UniProtKB/TrEMBL
UniProt	I3MMM5_ICTTR	UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

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