pdgfrb platelet-derived growth factor receptor, beta polypeptide [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: pdgfrbprovided by ZNC
Official Full Name: platelet-derived growth factor receptor, beta polypeptideprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030805-2
See related: Ensembl:ENSDARG00000100897 AllianceGenome:ZFIN:ZDB-GENE-030805-2
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: pdgfrb2
Summary: Predicted to enable ATP binding activity; metal ion binding activity; and transmembrane receptor protein tyrosine kinase activity. Involved in several processes, including angiogenesis involved in coronary vascular morphogenesis; platelet-derived growth factor receptor-beta signaling pathway; and positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction. Acts upstream of or within several processes, including embryonic neurocranium morphogenesis; hematopoietic stem cell differentiation; and vasculature development. Predicted to be located in plasma membrane. Is expressed in several structures, including digestive system; floor plate neural tube; hypochord; somite; and vasculature. Human ortholog(s) of this gene implicated in basal ganglia calcification; glioblastoma; infantile myofibromatosis; myeloproliferative neoplasm (multiple); and renal cell carcinoma. Orthologous to human PDGFRB (platelet derived growth factor receptor beta). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 14

Exon count:: 24

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	14	NC_007125.7 (3188091..3263475, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	Unplaced Scaffold	NW_003335281.1 (85481..117389)
105	previous assembly	GRCz10 (GCF_000002035.5)	Unplaced Scaffold	NW_003336495.1 (730..6404)

Chromosome 14 - NC_007125.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Glial cells expressing visual cycle genes are vital for photoreceptor survival in the zebrafish pineal gland.
Title: Glial cells expressing visual cycle genes are vital for photoreceptor survival in the zebrafish pineal gland.
Regenerating vascular mural cells in zebrafish fin blood vessels are not derived from pre-existing mural cells and differentially require Pdgfrb signalling for their development.
Title: Regenerating vascular mural cells in zebrafish fin blood vessels are not derived from pre-existing mural cells and differentially require Pdgfrb signalling for their development.
Pdgf/Pdgfr signalling guides neural crest contribution to the haematopoietic stem cell specification niche.
Title: Pdgf signalling guides neural crest contribution to the haematopoietic stem cell specification niche.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables kinase activity	IEA Inferred from Electronic Annotation more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info
enables protein kinase activity	IEA Inferred from Electronic Annotation more info
enables protein tyrosine kinase activity	IEA Inferred from Electronic Annotation more info
enables transferase activity	IEA Inferred from Electronic Annotation more info
enables transmembrane receptor protein tyrosine kinase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within angiogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in angiogenesis involved in coronary vascular morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within blood vessel morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within blood vessel remodeling	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cell surface receptor protein tyrosine kinase signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cerebellum vasculature development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within coronary vasculature development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic neurocranium morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within glomerular mesangium development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within hematopoietic stem cell differentiation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within hematopoietic stem cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neural crest cell migration	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within pericyte cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in platelet-derived growth factor receptor-beta signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of epithelial cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within protein phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in tissue regeneration	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within vascular associated smooth muscle cell development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in wound healing	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: platelet-derived growth factor receptor beta

Names: platelet-derived growth factor receptor beta 2

NP_001177862.1

EC 2.7.10.1

XP_021336701.1

EC 2.7.10.1

XP_021336702.1

EC 2.7.10.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001190933.1 → NP_001177862.1 platelet-derived growth factor receptor beta precursor

See identical proteins and their annotated locations for NP_001177862.1

Status: PROVISIONAL

Source sequence(s)

HM439112

UniProtKB/TrEMBL

D9MNA7

Related

ENSDARP00000138883.2, ENSDART00000167247.2

Conserved Domains (4) summary

smart00410
Location:311 → 393

IG_like; Immunoglobulin like

pfam07714
Location:579 → 933

Pkinase_Tyr; Protein tyrosine kinase

cl11960
Location:301 → 395

Ig; Immunoglobulin domain

cl21453
Location:541 → 939

PKc_like; Protein Kinases, catalytic domain

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

NC_007125.7 Reference GRCz11 Primary Assembly

Range

3188091..3263475 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021481026.2 → XP_021336701.1 platelet-derived growth factor receptor beta isoform X1

UniProtKB/TrEMBL

A0A8M9QKL5

Related

ENSDARP00000152459.1, ENSDART00000177244.2

Conserved Domains (4) summary

pfam13927
Location:404 → 437

Ig_3; Immunoglobulin domain

cl11960
Location:309 → 403

Ig; Immunoglobulin domain

cl21453
Location:549 → 947

PKc_like; Protein Kinases, catalytic domain

cl25865
Location:980 → 1053

Trypan_PARP; Procyclic acidic repetitive protein (PARP)
XM_021481027.2 → XP_021336702.1 platelet-derived growth factor receptor beta isoform X1

UniProtKB/TrEMBL

A0A8M9QKL5

Conserved Domains (4) summary

pfam13927
Location:404 → 437

Ig_3; Immunoglobulin domain

cl11960
Location:309 → 403

Ig; Immunoglobulin domain

cl21453
Location:549 → 947

PKc_like; Protein Kinases, catalytic domain

cl25865
Location:980 → 1053

Trypan_PARP; Procyclic acidic repetitive protein (PARP)