Vegfd (vascular endothelial growth factor D) - Rat Genome Database

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Gene: Vegfd (vascular endothelial growth factor D) Mus musculus
Analyze
Symbol: Vegfd
Name: vascular endothelial growth factor D
RGD ID: 731831
MGI Page MGI
Description: Exhibits growth factor activity; identical protein binding activity; and vascular endothelial growth factor receptor 3 binding activity. Involved in several processes, including dopaminergic neuron differentiation; response to bacterium; and vascular endothelial growth factor receptor signaling pathway. Localizes to extracellular space. Is expressed in several structures, including branchial arch; endocrine gland; lung; sensory organ; and tooth. Orthologous to human VEGFD (vascular endothelial growth factor D).
Type: protein-coding
RefSeq Status: REVIEWED
Also known as: AI325264; c-fos induced growth factor; c-fos-induced growth factor; Fig; Figf; VEGF-; VEGF-D
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X163,156,269 - 163,185,646 (+)NCBIGRCm39mm39
GRCm39 EnsemblX163,156,374 - 163,185,646 (+)Ensembl
GRCm38X164,373,522 - 164,402,650 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX164,373,378 - 164,402,650 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X160,811,480 - 160,840,579 (+)NCBIGRCm37mm9NCBIm37
MGSCv36X159,717,653 - 159,746,752 (+)NCBImm8
CeleraX147,588,947 - 147,618,041 (+)NCBICelera
Cytogenetic MapXF5NCBI
cM MapX76.35NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dichloroethane  (EXP)
1,2-dimethylhydrazine  (EXP)
1-chloro-2,4-dinitrobenzene  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (EXP)
2,2',5,5'-tetrachlorobiphenyl  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-amino-2-deoxy-D-glucopyranose  (EXP,ISO)
24,25-Dihydroxyvitamin D  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,3',5,5'-tetrabromobisphenol A  (EXP)
3,4-methylenedioxymethamphetamine  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (EXP,ISO)
4,4'-sulfonyldiphenol  (EXP)
4-hydroxyphenyl retinamide  (EXP)
aldehydo-D-glucosamine  (EXP,ISO)
aldehydo-D-glucose  (EXP)
ammonium chloride  (ISO)
arsenite(3-)  (EXP)
arsenous acid  (ISO)
atorvastatin calcium  (ISO)
benzalkonium chloride  (ISO)
benzo[a]pyrene  (EXP)
beta-D-glucosamine  (EXP,ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (ISO)
bisphenol F  (EXP)
bromobenzene  (ISO)
butanal  (ISO)
carbamazepine  (ISO)
carbon nanotube  (EXP)
chloroprene  (EXP)
cisplatin  (ISO)
clothianidin  (ISO)
crocidolite asbestos  (EXP)
cycloheximide  (ISO)
D-glucose  (EXP)
dexamethasone  (EXP,ISO)
dextran sulfate  (EXP)
diarsenic trioxide  (ISO)
dimethylarsinic acid  (ISO)
dioxygen  (ISO)
diuron  (ISO)
dorsomorphin  (ISO)
endosulfan  (ISO)
fingolimod hydrochloride  (EXP)
flutamide  (ISO)
furan  (ISO)
glucose  (EXP)
GW 4064  (EXP)
indometacin  (ISO)
isobutyl nitrite  (EXP)
manganese(II) chloride  (EXP)
methylmercury chloride  (ISO)
minocycline  (ISO)
N-methylformamide  (EXP)
nickel dichloride  (ISO)
nickel sulfate  (ISO)
p-menthan-3-ol  (ISO)
paclitaxel  (ISO)
PCB138  (EXP)
progesterone  (EXP,ISO)
quercetin  (ISO)
rifampicin  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
sodium dodecyl sulfate  (ISO)
sulforaphane  (EXP)
Tesaglitazar  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
thalidomide  (ISO)
titanium dioxide  (EXP)
troglitazone  (EXP)
valproic acid  (EXP,ISO)
vanadium atom  (ISO)
vanadium(0)  (ISO)
vinclozolin  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

Additional References at PubMed
PMID:8876195   PMID:9421270   PMID:9622638   PMID:10208880   PMID:10685072   PMID:11279005   PMID:11574540   PMID:12112468   PMID:12128233   PMID:12148568   PMID:12477932   PMID:12559492  
PMID:12920128   PMID:14610273   PMID:15489334   PMID:15590642   PMID:15601856   PMID:15743836   PMID:15882861   PMID:15955062   PMID:16141072   PMID:16462734   PMID:16624815   PMID:16778080  
PMID:16924525   PMID:17242158   PMID:17766486   PMID:18061373   PMID:18338756   PMID:18519586   PMID:18799693   PMID:19022221   PMID:19230644   PMID:19346498   PMID:19443835   PMID:19646499  
PMID:19710174   PMID:19718705   PMID:19828354   PMID:20230750   PMID:20589901   PMID:20615255   PMID:20978081   PMID:21267068   PMID:21481239   PMID:21677750   PMID:21704027   PMID:21745642  
PMID:21873635   PMID:21909098   PMID:22174793   PMID:22383980   PMID:22535492   PMID:22682244   PMID:22932121   PMID:23012479   PMID:23063660   PMID:23439394   PMID:23695550   PMID:23884445  
PMID:24006456   PMID:24016759   PMID:24113869   PMID:24115038   PMID:24269955   PMID:24443808   PMID:24550112   PMID:24952961   PMID:25061878   PMID:25271254   PMID:26418219   PMID:26432869  
PMID:26459520   PMID:26630663   PMID:26918199   PMID:26924464   PMID:27159393   PMID:27342876   PMID:27435926   PMID:28439006   PMID:28626015   PMID:29141865   PMID:29487191   PMID:29632070  
PMID:30228991   PMID:30354205   PMID:31338035   PMID:31562136   PMID:31894130   PMID:32390866  


Genomics

Comparative Map Data
Vegfd
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X163,156,269 - 163,185,646 (+)NCBIGRCm39mm39
GRCm39 EnsemblX163,156,374 - 163,185,646 (+)Ensembl
GRCm38X164,373,522 - 164,402,650 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX164,373,378 - 164,402,650 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X160,811,480 - 160,840,579 (+)NCBIGRCm37mm9NCBIm37
MGSCv36X159,717,653 - 159,746,752 (+)NCBImm8
CeleraX147,588,947 - 147,618,041 (+)NCBICelera
Cytogenetic MapXF5NCBI
cM MapX76.35NCBI
VEGFD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 EnsemblX15,345,596 - 15,384,413 (-)EnsemblGRCh38hg38GRCh38
GRCh38X15,345,596 - 15,384,413 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37X15,363,718 - 15,402,535 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X15,273,639 - 15,312,498 (-)NCBINCBI36hg18NCBI36
Build 34X15,123,375 - 15,162,234NCBI
CeleraX19,479,224 - 19,518,092 (-)NCBI
Cytogenetic MapXp22.2NCBI
HuRefX13,122,815 - 13,159,253 (-)NCBIHuRef
CHM1_1X15,394,667 - 15,433,457 (-)NCBICHM1_1
Vegfd
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2X30,073,122 - 30,108,413 (-)NCBI
Rnor_6.0 EnsemblX31,816,436 - 31,851,715 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0X31,816,480 - 31,852,239 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X32,190,233 - 32,225,843 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X50,830,612 - 50,864,445 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1X50,884,080 - 50,917,914 (-)NCBI
CeleraX30,420,833 - 30,454,666 (-)NCBICelera
Cytogenetic MapXq14NCBI
Vegfd
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555192,813,438 - 2,845,915 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555192,813,475 - 2,845,856 (+)NCBIChiLan1.0ChiLan1.0
VEGFD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1X15,254,945 - 15,293,704 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX15,254,945 - 15,293,704 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0X7,972,227 - 8,011,263 (-)NCBIMhudiblu_PPA_v0panPan3
VEGFD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X11,590,097 - 11,627,199 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX11,590,089 - 11,626,486 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX11,497,333 - 11,534,670 (-)NCBI
ROS_Cfam_1.0X11,552,176 - 11,589,521 (-)NCBI
UMICH_Zoey_3.1X11,615,093 - 11,652,427 (-)NCBI
UNSW_CanFamBas_1.0X11,606,440 - 11,643,765 (-)NCBI
UU_Cfam_GSD_1.0X11,634,519 - 11,671,865 (-)NCBI
Vegfd
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X4,761,827 - 4,794,675 (-)NCBI
SpeTri2.0NW_0049364704,761,827 - 4,794,751 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VEGFD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX11,893,259 - 11,933,809 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X11,893,254 - 11,933,923 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X12,853,823 - 12,894,483 (-)NCBISscrofa10.2Sscrofa10.2susScr3
VEGFD
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X13,813,472 - 13,854,253 (-)NCBI
ChlSab1.1 EnsemblX13,813,403 - 13,854,057 (-)Ensembl
Vegfd
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_004624829148,371 - 181,742 (-)NCBI

Position Markers
Figf  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic MapXF5UniSTS
cM MapX70.0UniSTS
Vegfc  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X164,402,007 - 164,402,215UniSTSGRCm38
MGSCv37X160,839,939 - 160,840,147UniSTSGRCm37
CeleraX147,617,459 - 147,617,609UniSTS
Cytogenetic MapXF5UniSTS
Cytogenetic Map8B3UniSTS
cM Map8 UniSTS
cM MapX70.0UniSTS
Vegfa  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X164,402,260 - 164,402,327UniSTSGRCm38
MGSCv37X160,840,192 - 160,840,259UniSTSGRCm37
CeleraX147,617,654 - 147,617,721UniSTS
Cytogenetic Map17CUniSTS
Cytogenetic MapXF5UniSTS
cM Map1724.2UniSTS
cM MapX70.0UniSTS
AI325264  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38X164,402,314 - 164,402,410UniSTSGRCm38
MGSCv37X160,840,246 - 160,840,342UniSTSGRCm37
CeleraX147,617,708 - 147,617,804UniSTS
Cytogenetic MapXF5UniSTS
cM MapX70.0UniSTS
Whitehead/MRC_RHX1926.44UniSTS
Whitehead/MRC_RHX2003.01UniSTS
Figf  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic MapXF5UniSTS
Figf  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic MapXF5UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1302000Pgia25_mproteoglycan induced arthritis 2 (mouse)Not determinedX145691384171031299Mouse
1357619Obsty5_mobesity 5 (mouse)Not determinedX161429897165366288Mouse
1558900Bw3_mbody weight QTL 3 (mouse)Not determinedX134639291166515599Mouse
10401118Pgia39_mproteoglycan induced arthritis 39 (mouse)Not determinedX145691384171031299Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:299
Count of miRNA genes:247
Interacting mature miRNAs:263
Transcripts:ENSMUST00000033751, ENSMUST00000124851
Prediction methods:Miranda, Pita, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000033751   ⟹   ENSMUSP00000033751
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 EnsemblX164,373,378 - 164,402,650 (+)Ensembl
RefSeq Acc Id: ENSMUST00000124851
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 EnsemblX164,391,243 - 164,400,780 (+)Ensembl
RefSeq Acc Id: NM_001308489   ⟹   NP_001295418
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X163,156,518 - 163,183,981 (+)NCBI
GRCm38X164,373,522 - 164,400,985 (+)NCBI
Sequence:
RefSeq Acc Id: NM_010216   ⟹   NP_034346
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X163,156,518 - 163,185,646 (+)NCBI
GRCm38X164,373,522 - 164,402,650 (+)NCBI
MGSCv37X160,811,480 - 160,840,579 (+)RGD
CeleraX147,588,947 - 147,618,041 (+)RGD
cM MapX ENTREZGENE
Sequence:
RefSeq Acc Id: XM_036161816   ⟹   XP_036017709
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39X163,156,269 - 163,185,643 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_034346   ⟸   NM_010216
- Peptide Label: isoform VEGF-D358 preproprotein
- UniProtKB: P97946 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001295418   ⟸   NM_001308489
- Peptide Label: isoform VEGF-D326 preproprotein
- UniProtKB: P97946 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000033751   ⟸   ENSMUST00000033751
RefSeq Acc Id: XP_036017709   ⟸   XM_036161816
- Peptide Label: isoform X1

Promoters
RGD ID:6845708
Promoter ID:MM_KWN:62692
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day3,   3T3L1_Day4,   MEF_B6
Transcripts:OTTMUST00000046607,   OTTMUST00000046608
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36X160,811,256 - 160,811,842 (+)MPROMDB
RGD ID:13681818
Promoter ID:EPDNEW_M25059
Type:initiation region
Name:Vegfd_1
Description:Mus musculus vascular endothelial growth factor D , transcriptvariant 1, mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38X164,373,618 - 164,373,678EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:108037 AgrOrtholog
Ensembl Genes ENSMUSG00000031380 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000033751 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000033751 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 2.10.90.10 UniProtKB/Swiss-Prot
InterPro CXCXC_repeat UniProtKB/Swiss-Prot
  Cystine-knot_cytokine UniProtKB/Swiss-Prot
  PD_growth_factor_CS UniProtKB/Swiss-Prot
  PDGF/VEGF_dom UniProtKB/Swiss-Prot
KEGG Report mmu:14205 UniProtKB/Swiss-Prot
MGD MGI:108037 ENTREZGENE
NCBI Gene 14205 ENTREZGENE
Pfam CXCXC UniProtKB/Swiss-Prot
  PDGF UniProtKB/Swiss-Prot
PhenoGen Vegfd PhenoGen
PROSITE PDGF_1 UniProtKB/Swiss-Prot
  PDGF_2 UniProtKB/Swiss-Prot
SMART PDGF UniProtKB/Swiss-Prot
Superfamily-SCOP SSF57501 UniProtKB/Swiss-Prot
UniProt P97946 ENTREZGENE
  Q6P5N9_MOUSE UniProtKB/TrEMBL
  VEGFD_MOUSE UniProtKB/Swiss-Prot
UniProt Secondary A2AIH3 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-31 Vegfd  vascular endothelial growth factor D  Figf  c-fos induced growth factor  Symbol and/or name change 5135510 APPROVED