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Ocm oncomodulin [ Rattus norvegicus (Norway rat) ]

Gene ID: 25503, updated on 10-Jul-2024

Summary

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Official Symbol
Ocmprovided by RGD
Official Full Name
oncomodulinprovided by RGD
Primary source
RGD:3222
See related
EnsemblRapid:ENSRNOG00000001031 AllianceGenome:RGD:3222
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
OM; Ocm2
Summary
Enables calcium ion binding activity and protein homodimerization activity. Involved in several processes, including cochlea development; positive regulation of axon regeneration; and positive regulation of retinal ganglion cell axon guidance. Located in several cellular components, including cuticular plate; extracellular space; and stereocilium. Part of protein-containing complex. Orthologous to several human genes including OCM2 (oncomodulin 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Lung (RPKM 8.5), Spleen (RPKM 5.9) and 4 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Ocm in Genome Data Viewer
Location:
12p11
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (15649452..15710375)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (10535619..10596705)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (12611121..12634472)

Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene tectonin beta-propeller repeat containing 1 Neighboring gene basic helix-loop-helix family, member a15 Neighboring gene lemur tyrosine kinase 2 Neighboring gene elongation factor 1-gamma-like Neighboring gene CCZ1 homolog, vacuolar protein trafficking and biogenesis associated Neighboring gene radial spoke head 10 homolog B

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. The Highly Conservative Cysteine of Oncomodulin as a Feasible Redox Sensor. Vologzhannikova AA, et al. Biomolecules, 2021 Jan 6. PMID 33419032, Free PMC Article
  2. Leucine 85 is an important determinant of divalent ion affinity in rat beta-parvalbumin (Oncomodulin). Henzl MT, et al. Biochemistry, 2008 Dec 23. PMID 19075559
  3. Solution structure of Ca2+-free rat beta-parvalbumin (oncomodulin). Henzl MT, et al. Protein Sci, 2007 Sep. PMID 17766386, Free PMC Article
  4. Refinement of recombinant oncomodulin at 1.30 A resolution. Ahmed FR, et al. J Mol Biol, 1993 Apr 20. PMID 8487302
  5. The complete amino acid sequence of oncomodulin--a parvalbumin-like calcium-binding protein from Morris hepatoma 5123tc. MacManus JP, et al. Eur J Biochem, 1983 Oct 17. PMID 6617664

See all (16) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The Highly Conservative Cysteine of Oncomodulin as a Feasible Redox Sensor.
    Title: The Highly Conservative Cysteine of Oncomodulin as a Feasible Redox Sensor.
  2. Leucine 85 is an important determinant of divalent ion affinity in rat beta-parvalbumin
    Title: Leucine 85 is an important determinant of divalent ion affinity in rat beta-parvalbumin (Oncomodulin).
  3. Solution structure of Ca2+-free oncomodulin is reported.
    Title: Solution structure of Ca2+-free rat beta-parvalbumin (oncomodulin).
  4. Oncomodulin expression begins between postnatal day 2 and P4 and peaks as early as P10; it is uniquely expressed by the outer hair cells (OHCs) in the rat cochlea and occurs after efferent innervation along the cochlear spiral between P2 and P4.
    Title: Expression of alpha and beta parvalbumin is differentially regulated in the rat organ of corti during development.
  5. Thus, oncomodulin is a new growth factor for neurons of the mature central and peripheral nervous systems.
    Title: Oncomodulin is a macrophage-derived signal for axon regeneration in retinal ganglion cells.
  6. Oncomodulin is a growth factor for neurons of the mature central and peripheral nervous systems.
    Title: Oncomodulin is a macrophage-derived signal for axon regeneration in retinal ganglion cells.
Submit: New GeneRIF Correction

General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables calcium ion binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables calcium ion binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein homodimerization activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein-containing complex binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in cochlea development IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in response to wounding IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
located_in cuticular plate IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in extracellular space IDA
Inferred from Direct Assay
more info
 PubMed 
part_of protein-containing complex IDA
Inferred from Direct Assay
more info
 PubMed 
located_in stereocilium IDA
Inferred from Direct Assay
more info
 PubMed 
located_in supramolecular fiber IDA
Inferred from Direct Assay
more info
 PubMed 
located_in vesicle IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
oncomodulin
Names
oncmodulin
oncomodulin 2
parvalbumin beta

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_012995.2 → NP_037127.1  oncomodulin

    See identical proteins and their annotated locations for NP_037127.1

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000012
    UniProtKB/Swiss-Prot
    P02631
    UniProtKB/TrEMBL
    A6K1I3
    Related
    ENSRNOP00000075788.2, ENSRNOT00000092601.3
    Conserved Domains (1) summary
    cd16255
    Location:9 → 109
    EFh_parvalbumin_beta; EF-hand, calcium binding motif, found in beta-parvalbumin

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_086030.1 Reference GRCr8

    Range
    15649452..15710375
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063271084.1 → XP_063127154.1  oncomodulin isoform X2

    UniProtKB/Swiss-Prot
    P02631
    UniProtKB/TrEMBL
    A6K1I3

  2. XM_063271083.1 → XP_063127153.1  oncomodulin isoform X2

    UniProtKB/Swiss-Prot
    P02631
    UniProtKB/TrEMBL
    A6K1I3

  3. XM_006248852.4 → XP_006248914.1  oncomodulin isoform X1

    Related
    ENSRNOP00000110303.1, ENSRNOT00000135538.1
    Conserved Domains (2) summary
    cd00051
    Location:63 → 128
    EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...
    pfam13499
    Location:64 → 127
    EF-hand_7; EF-hand domain pair

  4. XM_063271085.1 → XP_063127155.1  oncomodulin isoform X2

    UniProtKB/Swiss-Prot
    P02631
    UniProtKB/TrEMBL
    A6K1I3
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P02631.2 GenPept UniProtKB/Swiss-Prot:P02631

Gene LinkOut

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