U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

ppfia1 PTPRF interacting protein alpha 1 [ Danio rerio (zebrafish) ]

Gene ID: 100003520, updated on 12-Sep-2024

Summary

Go to the top of the page Help
Official Symbol
ppfia1provided by ZNC
Official Full Name
PTPRF interacting protein alpha 1provided by ZNC
Primary source
ZFIN:ZDB-GENE-080214-4
See related
Ensembl:ENSDARG00000098674 AllianceGenome:ZFIN:ZDB-GENE-080214-4
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
zgc:171298
Summary
Orthologous to human PPFIA1 (PTPRF interacting protein alpha 1). [provided by Alliance of Genome Resources, Apr 2022]
Annotation information
Annotation category: partial on reference assembly
Orthologs
all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See ppfia1 in Genome Data Viewer
Location:
chromosome: 18
Exon count:
19
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 18 NC_007129.7 (50942220..50974471)
105 previous assembly GRCz10 (GCF_000002035.5) 18 NC_007129.6 (50859411..50876414, complement)

Chromosome 18 - NC_007129.7Genomic Context describing neighboring genes Neighboring gene cortactin Neighboring gene phosphatidylinositol-4-phosphate 3-kinase catalytic subunit type 2 gamma Neighboring gene suppressor of tumorigenicity 7 protein homolog Neighboring gene suppression of tumorigenicity 7 Neighboring gene liprin-alpha-1 pseudogene Neighboring gene uncharacterized LOC137488351 Neighboring gene reelin-like Neighboring gene bouncer

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. The PPFIA1-PP2A protein complex promotes trafficking of Kif7 to the ciliary tip and Hedgehog signaling. Liu YC, et al. Sci Signal, 2014 Dec 9. PMID 25492966
  2. Molecular evolution and functional divergence of zebrafish (Danio rerio) cryptochrome genes. Liu C, et al. Sci Rep, 2015 Jan 29. PMID 25630924, Free PMC Article
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

Go to the top of the page Help

Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
  
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
liprin-alpha-1
Names
protein tyrosine phosphatase, receptor type, f polypeptide (PTPRF), interacting protein (liprin), alpha 1

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001111244.1 → NP_001104714.1  liprin-alpha-1

    See identical proteins and their annotated locations for NP_001104714.1

    Status: PROVISIONAL

    Source sequence(s)
    BC155544
    UniProtKB/TrEMBL
    A9JR75
    Related
    ENSDARP00000139092.3, ENSDART00000158768.3
    Conserved Domains (6) summary
    cd09562
    Location:866 → 936
    SAM_liprin-alpha1,2,3,4_repeat1; SAM domain of liprin-alpha1,2,3,4 proteins repeat 1
    cd09565
    Location:953 → 1018
    SAM_liprin-alpha1,2,3,4_repeat2; SAM domain of liprin-alpha1,2,3,4 proteins repeat 2
    cd09568
    Location:1038 → 1109
    SAM_liprin-alpha1,2,3,4_repeat3; SAM domain of liprin-alpha1,2,3,4 proteins repeat 3
    smart00454
    Location:866 → 932
    SAM; Sterile alpha motif
    pfam00261
    Location:235 → 464
    Tropomyosin; Tropomyosin
    cl12013
    Location:283 → 466
    BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature

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_007129.7 Reference GRCz11 Primary Assembly

    Range
    50942220..50974471
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.