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Afg2a AFG2 AAA ATPase homolog A [ Rattus norvegicus (Norway rat) ]

Gene ID: 361935, updated on 3-Apr-2024

Summary

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Official Symbol
Afg2aprovided by RGD
Official Full Name
AFG2 AAA ATPase homolog Aprovided by RGD
Primary source
RGD:1310478
See related
Ensembl:ENSRNOG00000017462 AllianceGenome:RGD:1310478
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Spata5
Summary
Predicted to enable ATP hydrolysis activity. Predicted to be involved in brain development. Predicted to be located in spindle. Predicted to be active in cytoplasm. Orthologous to human SPATA5 (spermatogenesis associated 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Testes (RPKM 117.2), Thymus (RPKM 83.8) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Afg2a in Genome Data Viewer
Location:
2q25
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (122234619..122425808)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (120306417..120497707)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (124149872..124341138)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene Bardet-Biedl syndrome 12 Neighboring gene fibroblast growth factor 2 Neighboring gene nudix hydrolase 6 Neighboring gene small nucleolar RNA SNORA51 Neighboring gene 60S ribosomal protein L7a pseudogene Neighboring gene sprouty RTK signaling antagonist 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Compound heterozygous SPATA5 variants in four families and functional studies of SPATA5 deficiency. Puusepp S, et al. Eur J Hum Genet, 2018 Mar. PMID 29343804, Free PMC Article
  2. Mutations in SPATA5 Are Associated with Microcephaly, Intellectual Disability, Seizures, and Hearing Loss. Tanaka AJ, et al. Am J Hum Genet, 2015 Sep 3. PMID 26299366, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SPATA5-deficient neurons had a significant imbalance in the mitochondrial fusion-fission rate, impaired energy production and short axons.
    Title: Compound heterozygous SPATA5 variants in four families and functional studies of SPATA5 deficiency.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables ATP hydrolysis activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables preribosome binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in brain development ISO
Inferred from Sequence Orthology
more info
  
involved_in ribosomal large subunit biogenesis ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in spindle ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
ATPase family gene 2 protein homolog A
Names
ATPase family protein 2 homolog
ribosome biogenesis protein SPATA5
spermatogenesis associated 5
spermatogenesis-associated protein 5
NP_001402011.1
XP_008759155.1
XP_008759156.1

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_001415082.1 → NP_001402011.1  ATPase family gene 2 protein homolog A

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000002
    UniProtKB/TrEMBL
    A0A8I6A2A6
    Related
    ENSRNOP00000086493.1, ENSRNOT00000119204.1

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086020.1 Reference GRCr8

    Range
    122234619..122425808
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_008760933.4 → XP_008759155.1  ATPase family gene 2 protein homolog A isoform X1

    UniProtKB/TrEMBL
    A6II14, D4A6T1
    Related
    ENSRNOP00000023584.5
    Conserved Domains (3) summary
    COG0464
    Location:369 → 881
    SpoVK; AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms]
    pfam00004
    Location:663 → 795
    AAA; ATPase family associated with various cellular activities (AAA)
    cl21693
    Location:63 → 131
    CDC48_N; Cell division protein 48 (CDC48), N-terminal domain

  2. XM_008760934.3 → XP_008759156.1  ATPase family gene 2 protein homolog A isoform X2

    UniProtKB/TrEMBL
    A0A0G2K0I1, A6II14, D4A6T1
    Related
    ENSRNOP00000071455.1
    Conserved Domains (3) summary
    COG0464
    Location:370 → 835
    SpoVK; AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms]
    pfam00004
    Location:664 → 796
    AAA; ATPase family associated with various cellular activities (AAA)
    cl21693
    Location:64 → 132
    CDC48_N; Cell division protein 48 (CDC48), N-terminal domain

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001108549.2: Suppressed sequence

    Description
    NM_001108549.2: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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