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ptprfa protein tyrosine phosphatase receptor type Fa [ Danio rerio (zebrafish) ]

Gene ID: 140819, updated on 14-Nov-2024

Summary

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Official Symbol
ptprfaprovided by ZNC
Official Full Name
protein tyrosine phosphatase receptor type Faprovided by ZNC
Primary source
ZFIN:ZDB-GENE-020107-2
See related
Ensembl:ENSDARG00000103479 AllianceGenome:ZFIN:ZDB-GENE-020107-2
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
LAR; ptprf
Summary
Predicted to enable protein tyrosine phosphatase activity. Acts upstream of or within sensory neuron axon guidance. Predicted to be located in plasma membrane. Is expressed in nervous system; pectoral fin; pharyngeal arch; and somite. Human ortholog(s) of this gene implicated in hyperinsulinism. Orthologous to human PTPRF (protein tyrosine phosphatase receptor type F). [provided by Alliance of Genome Resources, Nov 2024]
Annotation information
Annotation category: suggests misassembly
Orthologs
human mouse all
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Genomic context

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See ptprfa in Genome Data Viewer
Location:
chromosome: 6
Exon count:
36
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (2872279..3274488)
105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (2595911..3112871)

Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene KICSTOR complex protein SZT2 Neighboring gene hydroxypyruvate isomerase Neighboring gene uncharacterized LOC137495906 Neighboring gene lysine (K)-specific demethylase 4A, genome duplicate a Neighboring gene ST3 beta-galactoside alpha-2,3-sialyltransferase 3a

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: 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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Related articles in PubMed

  1. LAR receptor tyrosine phosphatases and HSPGs guide peripheral sensory axons to the skin. Wang F, et al. Curr Biol, 2012 Mar 6. PMID 22326027, Free PMC Article
  2. Protein tyrosine phosphatase σ regulates the synapse number of zebrafish olfactory sensory neurons. Chen X, et al. J Neurochem, 2011 Nov. PMID 21812780
  3. Deeply conserved chordate noncoding sequences preserve genome synteny but do not drive gene duplicate retention. Hufton AL, et al. Genome Res, 2009 Nov. PMID 19704032, Free PMC Article
  4. Role of neurexin2a in lead-induced locomotor defect in developing zebrafish. Tu H, et al. Aquat Toxicol, 2018 Jan. PMID 29195096
  5. Differential oxidation of protein-tyrosine phosphatases during zebrafish caudal fin regeneration. Wu W, et al. Sci Rep, 2017 Aug 16. PMID 28814789, Free PMC Article

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables phosphoprotein phosphatase activity IEA
Inferred from Electronic Annotation
more info
  
enables protein tyrosine phosphatase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within cell adhesion IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within dephosphorylation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within protein dephosphorylation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within sensory neuron axon guidance IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within sensory neuron axon guidance 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
protein tyrosine phosphatase receptor type Fa
Names
protein tyrosine phosphatase, receptor type, f, a
zf-LAR
NP_001298277.1
XP_021332446.1
XP_068077726.1
XP_068077727.1
XP_068077728.1
XP_068077730.1
XP_068077731.1
XP_068077732.1
XP_068077733.1
XP_068077734.1
XP_068077735.1
XP_068077736.1

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)

  1. NM_001311348.1 → NP_001298277.1  protein tyrosine phosphatase receptor type Fa precursor

    Status: VALIDATED

    Source sequence(s)
    JQ414007
    UniProtKB/TrEMBL
    H9CWQ2
    Related
    ENSDARP00000150663.1, ENSDART00000181271.1
    Conserved Domains (9) summary
    cd00096
    Location:51 → 122
    Ig; Immunoglobulin domain
    cd05738
    Location:153 → 227
    Ig2_RPTP_IIa_LAR_like; Second immunoglobulin (Ig)-like domain of the receptor protein tyrosine phosphatase (RPTP)-F, also known as LAR
    cd05739
    Location:247 → 315
    Ig3_RPTP_IIa_LAR_like; Third immunoglobulin (Ig)-like domain of the receptor protein tyrosine phosphatase (RPTP)-F, also known as LAR
    smart00194
    Location:1339 → 1593
    PTPc; Protein tyrosine phosphatase, catalytic domain
    smart00410
    Location:142 → 226
    IG_like; Immunoglobulin like
    cd00047
    Location:1364 → 1593
    PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...
    cd00063
    Location:320 → 409
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07679
    Location:34 → 125
    I-set; Immunoglobulin I-set domain
    pfam00041
    Location:609 → 696
    fn3; Fibronectin type III 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

  1. NC_007117.7 Reference GRCz11 Primary Assembly

    Range
    2872279..3274488
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068221625.1 → XP_068077726.1  protein tyrosine phosphatase receptor type Fa isoform X1

  2. XM_068221630.1 → XP_068077731.1  protein tyrosine phosphatase receptor type Fa isoform X5

  3. XM_068221632.1 → XP_068077733.1  protein tyrosine phosphatase receptor type Fa isoform X7

  4. XM_068221626.1 → XP_068077727.1  protein tyrosine phosphatase receptor type Fa isoform X2

    Related
    ENSDARP00000138975.2, ENSDART00000171014.2

  5. XM_068221633.1 → XP_068077734.1  protein tyrosine phosphatase receptor type Fa isoform X8

  6. XM_068221627.1 → XP_068077728.1  protein tyrosine phosphatase receptor type Fa isoform X3

  7. XM_068221629.1 → XP_068077730.1  protein tyrosine phosphatase receptor type Fa isoform X4

  8. XM_068221631.1 → XP_068077732.1  protein tyrosine phosphatase receptor type Fa isoform X6

    Related
    ENSDARP00000145445.1, ENSDART00000191485.1

  9. XM_068221634.1 → XP_068077735.1  protein tyrosine phosphatase receptor type Fa isoform X9

  10. XM_068221635.1 → XP_068077736.1  protein tyrosine phosphatase receptor type Fa isoform X10

  11. XM_021476771.2 → XP_021332446.1  protein tyrosine phosphatase receptor type Fa isoform X10

    UniProtKB/TrEMBL
    A0A8M9QA48
    Related
    ENSDARP00000155993.1, ENSDART00000183181.1
    Conserved Domains (5) summary
    cd05739
    Location:246 → 314
    Ig3_RPTP_IIa_LAR_like; Third immunoglobulin (Ig)-like domain of the receptor protein tyrosine phosphatase (RPTP)-F, also known as LAR
    cd00047
    Location:1261 → 1490
    PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...
    cd00063
    Location:319 → 408
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    pfam07679
    Location:33 → 124
    I-set; Immunoglobulin I-set domain
    cd05738
    Location:152 → 226
    Ig2_RPTP_IIa_LAR_like; Second immunoglobulin (Ig)-like domain of the receptor protein tyrosine phosphatase (RPTP)-F, also known as LAR
Nucleotide Protein Strain
Heading Accession and Version

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