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hm13 histocompatibility (minor) 13 [ Danio rerio (zebrafish) ]

Gene ID: 259190, updated on 25-Apr-2024

Summary

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Official Symbol
hm13provided by ZNC
Official Full Name
histocompatibility (minor) 13provided by ZNC
Primary source
ZFIN:ZDB-GENE-020802-3
See related
Ensembl:ENSDARG00000037846 AllianceGenome:ZFIN:ZDB-GENE-020802-3
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
H13; SPP; cb228; zgc:56660; zgc:86862; wu:fc11a06
Summary
Predicted to enable aspartic endopeptidase activity, intramembrane cleaving. Acts upstream of or within regulation of neuron apoptotic process. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be integral component of cytoplasmic side of endoplasmic reticulum membrane and integral component of lumenal side of endoplasmic reticulum membrane. Is expressed in several structures, including alar plate midbrain region; axial mesoderm; digestive system; immature eye; and nervous system. Orthologous to human HM13 (histocompatibility minor 13). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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See hm13 in Genome Data Viewer
Location:
chromosome: 23
Exon count:
13
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 23 NC_007134.7 (480433..493392, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 23 NC_007134.6 (467640..480599, complement)

Chromosome 23 - NC_007134.7Genomic Context describing neighboring genes Neighboring gene tetraspanin 2b Neighboring gene si:ch73-181d5.4 Neighboring gene collagen, type IX, alpha 3 Neighboring gene SAM domain and HD domain 1

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. Differential localization and identification of a critical aspartate suggest non-redundant proteolytic functions of the presenilin homologues SPPL2b and SPPL3. Krawitz P, et al. J Biol Chem, 2005 Nov 25. PMID 15998642
  2. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
  3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  4. 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
  5. 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

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables aspartic endopeptidase activity, intramembrane cleaving IBA
Inferred from Biological aspect of Ancestor
more info
  
enables aspartic endopeptidase activity, intramembrane cleaving IEA
Inferred from Electronic Annotation
more info
  
enables endopeptidase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in membrane protein proteolysis IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within regulation of neuron apoptotic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in signal peptide processing IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cytoplasmic side of endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in lumenal side of endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
minor histocompatibility antigen H13
Names
histocompatibility 13
intramembrane aspartyl protease
signal peptide peptidase
NP_997737.2
XP_005161947.1

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_212572.2 → NP_997737.2  minor histocompatibility antigen H13

    See identical proteins and their annotated locations for NP_997737.2

    Status: PROVISIONAL

    Source sequence(s)
    BC071503
    UniProtKB/TrEMBL
    F6NH42, Q5BP98, Q6IQA7
    Related
    ENSDARP00000109113.2, ENSDART00000128433.3
    Conserved Domains (1) summary
    pfam04258
    Location:65 → 353
    Peptidase_A22B; Signal peptide peptidase

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007134.7 Reference GRCz11 Primary Assembly

    Range
    480433..493392 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005161890.4 → XP_005161947.1  minor histocompatibility antigen H13 isoform X1

    UniProtKB/TrEMBL
    A0A8M2B8N4
    Conserved Domains (1) summary
    pfam04258
    Location:65 → 353
    Peptidase_A22B; Signal peptide peptidase
Nucleotide Protein Strain
Heading Accession and Version

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