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Tpm3 tropomyosin 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 117557, updated on 13-Apr-2024

Summary

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Official Symbol
Tpm3provided by RGD
Official Full Name
tropomyosin 3provided by RGD
Primary source
RGD:621546
See related
Ensembl:ENSRNOG00000017441 AllianceGenome:RGD:621546
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
Tpm5; TM30nm
Summary
Predicted to enable actin filament binding activity. Involved in brain development. Located in brush border. Human ortholog(s) of this gene implicated in congenital fiber-type disproportion and nemaline myopathy 1. Orthologous to human TPM3 (tropomyosin 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Muscle (RPKM 928.6), Spleen (RPKM 397.6) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Tpm3 in Genome Data Viewer
Location:
2q34
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (177812534..177842661)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (175517198..175545014)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (189423534..189451340)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene NS5A transactivated protein 4 Neighboring gene cilia and flagella associated protein 141 Neighboring gene microRNA 190b Neighboring gene transfer RNA proline (anticodon AGG) 20 Neighboring gene nucleoporin 210-like Neighboring gene glyceraldehyde-3-phosphate dehydrogenase-like

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. Functional effects of congenital myopathy-related mutations in gamma-tropomyosin gene. Robaszkiewicz K, et al. Biochim Biophys Acta, 2012 Oct. PMID 22749829
  2. Expression of tropomyosin-encoding gene in the kidney depends on functioning of vasopressin gene. Khegay II, et al. Biochem Genet, 2004 Feb. PMID 15068339
  3. Splicing of two internal and four carboxyl-terminal alternative exons in nonmuscle tropomyosin 5 pre-mRNA is independently regulated during development. Dufour C, et al. J Biol Chem, 1998 Jul 17. PMID 9660825
  4. Low molecular weight rat fibroblast tropomyosin 5 (TM-5): cDNA cloning, actin-binding, localization, and coiled-coil interactions. Temm-Grove CJ, et al. Cell Motil Cytoskeleton, 1996. PMID 8674141
  5. Identification of novel alternatively spliced isoforms of the tropomyosin-encoding gene, TMnm, in the rat cochlea. Beisel KW, et al. Gene, 1994 Jun 10. PMID 8206382

See all (25) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. [Effects of tropomyosin 3 on pyroptosis of cardiomyocytes and fibroblast activation induced by hypoxia/reoxygenation in rats].
    Title: [Effects of tropomyosin 3 on pyroptosis of cardiomyocytes and fibroblast activation induced by hypoxia/reoxygenation in rats].
  2. Physical interaction of tropomyosin 3 and STIM1 regulates vascular smooth muscle contractility and contributes to hypertension.
    Title: Physical interaction of tropomyosin 3 and STIM1 regulates vascular smooth muscle contractility and contributes to hypertension.
  3. All studied gamma-tropomyosin mutants reduced Ca-induced activation but had no effect on the inhibition of actomyosin cross-bridges.
    Title: Functional effects of congenital myopathy-related mutations in gamma-tropomyosin gene.
  4. variation in the tropomyosin isoform composition of microfilaments provides a mechanism to generate functionally distinct filament populations
    Title: Tropomyosin isoform 3 promotes the formation of filopodia by regulating the recruitment of actin-binding proteins to actin filaments.
  5. the main expression of Tpm3(3) takes place in the renal medulla, and its intensity differs in normal and Brattleboro diabetes insipidus mutant rats
    Title: Expression of tropomyosin-encoding gene in the kidney depends on functioning of vasopressin gene.
Submit: New GeneRIF Correction

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables actin filament binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables actin filament binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in actin filament organization IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in muscle contraction IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in actin cytoskeleton ISO
Inferred from Sequence Orthology
more info
  
is_active_in actin filament IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in brush border IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cleavage furrow ISO
Inferred from Sequence Orthology
more info
  
located_in cortical cytoskeleton ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in growth cone ISO
Inferred from Sequence Orthology
more info
  
located_in neuron projection ISO
Inferred from Sequence Orthology
more info
  
located_in podosome ISO
Inferred from Sequence Orthology
more info
  
located_in stress fiber IEA
Inferred from Electronic Annotation
more info
  
located_in stress fiber ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
tropomyosin alpha-3 chain
Names
gamma-tropomyosin
nonmuscle tropomyosin 5
tropomyosin 3, gamma
tropomyosin non-muscle
tropomyosin-5

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_001301285.1 → NP_001288214.1  tropomyosin alpha-3 chain isoform Tpm3.12st

    Status: PROVISIONAL

    Description
    Transcript Variant: This variant (Tpm3.12, also known as variant 3) encodes the longest isoform (Tpm3.12st, also known as isoform 3). The encoded protein is a fast skeletal muscle isoform.
    Source sequence(s)
    FQ215580
    Related
    ENSRNOP00000035561.5, ENSRNOT00000029076.6
    Conserved Domains (3) summary
    pfam00261
    Location:49 → 283
    Tropomyosin; Tropomyosin
    pfam07851
    Location:181 → 275
    TMPIT; TMPIT-like protein
    pfam16526
    Location:14 → 73
    CLZ; C-terminal leucine zipper domain of cyclic nucleotide-gated channels

  2. NM_001301286.1 → NP_001288215.1  tropomyosin alpha-3 chain isoform Tpm3.3cy

    See identical proteins and their annotated locations for NP_001288215.1

    Status: PROVISIONAL

    Description
    Transcript Variant: This variant (Tpm3.3, also known as variant 4) differs in the 5' UTR and coding sequence compared to variant Tpm3.12. The resulting isoform (Tpm3.3cy, also known as isoform 4) has a shorter and distinct N-terminus compared to isoform Tpm3.12st.
    Source sequence(s)
    FQ215580, L24776
    UniProtKB/TrEMBL
    A6J6K0
    Conserved Domains (1) summary
    pfam00261
    Location:12 → 246
    Tropomyosin

  3. NM_057208.2 → NP_476556.2  tropomyosin alpha-3 chain isoform Tpm3.4cy

    See identical proteins and their annotated locations for NP_476556.2

    Status: PROVISIONAL

    Description
    Transcript Variant: This variant (Tpm3.4, also known as variant 1) differs in both UTR's and the coding region but maintains the reading frame, compared to variant Tpm3.12. This results in an isoform (Tpm3.4cy, also known as isoform 1) that is shorter at both the N- and C-termini, compared to isoform Tpm3.12st.
    Source sequence(s)
    L24777
    UniProtKB/TrEMBL
    A6J6J8
    Conserved Domains (1) summary
    pfam00261
    Location:12 → 245
    Tropomyosin

  4. NM_173111.2 → NP_775134.2  tropomyosin alpha-3 chain isoform Tpm3.1cy

    Status: PROVISIONAL

    Description
    Transcript Variant: This variant (Tpm3.1, also known as variant 2) differs in both UTR's and the coding region but maintains the reading frame, compared to variant Tpm3.12. This results in an isoform (Tpm3.1cy, also known as isoform 2) that is shorter at both the N- and C-termini, compared to isoform Tpm3.12st.
    Source sequence(s)
    JAXUCZ010000002
    UniProtKB/Swiss-Prot
    Q63599, Q63600, Q63601, Q63610
    UniProtKB/TrEMBL
    A6J6J6
    Related
    ENSRNOP00000097306.1, ENSRNOT00000101991.1
    Conserved Domains (1) summary
    pfam00261
    Location:12 → 246
    Tropomyosin

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
    177812534..177842661
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006232569.5 → XP_006232631.1  tropomyosin alpha-3 chain isoform X5

    See identical proteins and their annotated locations for XP_006232631.1

    Conserved Domains (2) summary
    pfam00261
    Location:49 → 283
    Tropomyosin
    pfam16526
    Location:14 → 73
    CLZ; C-terminal leucine zipper domain of cyclic nucleotide-gated channels

  2. XM_006232568.5 → XP_006232630.1  tropomyosin alpha-3 chain isoform X3

    See identical proteins and their annotated locations for XP_006232630.1

    UniProtKB/TrEMBL
    A0A8I6A144, A6J6J4
    Related
    ENSRNOP00000085183.1
    Conserved Domains (1) summary
    pfam00261
    Location:49 → 283
    Tropomyosin

  3. XM_006232573.5 → XP_006232635.1  tropomyosin alpha-3 chain isoform X7

    See identical proteins and their annotated locations for XP_006232635.1

    UniProtKB/TrEMBL
    A0A140TAF0, A6J6J5
    Related
    ENSRNOP00000094091.1
    Conserved Domains (2) summary
    pfam00261
    Location:49 → 283
    Tropomyosin
    pfam16526
    Location:14 → 73
    CLZ; C-terminal leucine zipper domain of cyclic nucleotide-gated channels

  4. XM_006232572.5 → XP_006232634.1  tropomyosin alpha-3 chain isoform X6

    See identical proteins and their annotated locations for XP_006232634.1

    Conserved Domains (1) summary
    pfam00261
    Location:49 → 283
    Tropomyosin

  5. XM_006232576.5 → XP_006232638.1  tropomyosin alpha-3 chain isoform X8

    Conserved Domains (2) summary
    pfam00261
    Location:49 → 282
    Tropomyosin
    pfam16526
    Location:14 → 73
    CLZ; C-terminal leucine zipper domain of cyclic nucleotide-gated channels

  6. XM_006232577.5 → XP_006232639.1  tropomyosin alpha-3 chain isoform X9

    See identical proteins and their annotated locations for XP_006232639.1

    Conserved Domains (1) summary
    pfam00261
    Location:49 → 282
    Tropomyosin

  7. XM_063281193.1 → XP_063137263.1  tropomyosin alpha-3 chain isoform X1

  8. XM_006232570.5 → XP_006232632.1  tropomyosin alpha-3 chain isoform X4

    See identical proteins and their annotated locations for XP_006232632.1

    Conserved Domains (2) summary
    pfam00261
    Location:49 → 283
    Tropomyosin
    pfam16526
    Location:14 → 73
    CLZ; C-terminal leucine zipper domain of cyclic nucleotide-gated channels

  9. XM_063281194.1 → XP_063137264.1  tropomyosin alpha-3 chain isoform X2

  10. XM_063281196.1 → XP_063137266.1  tropomyosin alpha-3 chain isoform X11

  11. XM_063281197.1 → XP_063137267.1  tropomyosin alpha-3 chain isoform X15

    UniProtKB/TrEMBL
    A6J6K0

  12. XM_063281195.1 → XP_063137265.1  tropomyosin alpha-3 chain isoform X10

  13. XM_006232584.5 → XP_006232646.1  tropomyosin alpha-3 chain isoform X16

    UniProtKB/TrEMBL
    A0A8L2QDD9
    Related
    ENSRNOP00000023605.4
    Conserved Domains (1) summary
    pfam00261
    Location:12 → 245
    Tropomyosin

  14. XM_006232581.5 → XP_006232643.1  tropomyosin alpha-3 chain isoform X14

    Conserved Domains (1) summary
    pfam00261
    Location:12 → 246
    Tropomyosin

  15. XM_039101596.2 → XP_038957524.1  tropomyosin alpha-3 chain isoform X13

    UniProtKB/TrEMBL
    A0A8L2QDD2
    Related
    ENSRNOP00000023567.6

  16. XM_039101595.2 → XP_038957523.1  tropomyosin alpha-3 chain isoform X12

    UniProtKB/TrEMBL
    A0A8L2QDD2

  17. XM_063281200.1 → XP_063137270.1  tropomyosin alpha-3 chain isoform X20

  18. XM_063281198.1 → XP_063137268.1  tropomyosin alpha-3 chain isoform X17

  19. XM_063281199.1 → XP_063137269.1  tropomyosin alpha-3 chain isoform X19

  20. XM_039101597.2 → XP_038957525.1  tropomyosin alpha-3 chain isoform X18

    UniProtKB/TrEMBL
    A0A8I6G322
    Related
    ENSRNOP00000079275.1
    Conserved Domains (1) summary
    pfam00261
    Location:20 → 222
    Tropomyosin
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q63610.2 GenPept UniProtKB/Swiss-Prot:Q63610

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