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tpm1 tropomyosin 1 (alpha) [ Danio rerio (zebrafish) ]

Gene ID: 393908, updated on 28-Oct-2024

Summary

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Official Symbol
tpm1provided by ZNC
Official Full Name
tropomyosin 1 (alpha)provided by ZNC
Primary source
ZFIN:ZDB-GENE-040426-854
See related
Ensembl:ENSDARG00000087402 AllianceGenome:ZFIN:ZDB-GENE-040426-854
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
Tm1; TPM1-1; zgc:55951; zgc:77009; zgc:171719
Summary
Predicted to enable actin filament binding activity. Predicted to be involved in actin filament organization and muscle contraction. Predicted to be active in actin filament. Is expressed in adaxial cell; heart; and musculature system. Human ortholog(s) of this gene implicated in congenital myopathy 4A; dilated cardiomyopathy 1Y; familial hypertrophic cardiomyopathy; hypertrophic cardiomyopathy 3; and nemaline myopathy 1. Orthologous to several human genes including TPM1 (tropomyosin 1). [provided by Alliance of Genome Resources, Oct 2024]
Orthologs
human mouse all
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Genomic context

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See tpm1 in Genome Data Viewer
Location:
chromosome: 25
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 25 NC_007136.7 (33192796..33250323)
105 previous assembly GRCz10 (GCF_000002035.5) 25 NC_007136.6 (32707311..32764896)

Chromosome 25 - NC_007136.7Genomic Context describing neighboring genes Neighboring gene C2 calcium dependent domain containing 4A Neighboring gene talin 2b Neighboring gene microRNA 190 Neighboring gene proepiregulin-like Neighboring gene lactamase, beta

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 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. Identification, characterization, and expression of sarcomeric tropomyosin isoforms in zebrafish. Dube DK, et al. Cytoskeleton (Hoboken), 2017 Mar. PMID 27998020, Free PMC Article
  2. A role for DNA methylation in gastrulation and somite patterning. Martin CC, et al. Dev Biol, 1999 Feb 15. PMID 9986732
  3. ErbB4 tyrosine kinase inhibition impairs neuromuscular development in zebrafish embryos. Paatero I, et al. Mol Biol Cell, 2019 Jan 15. PMID 30462579, Free PMC Article
  4. Ibuprofen and diclofenac impair the cardiovascular development of zebrafish (Danio rerio) at low concentrations. Zhang K, et al. Environ Pollut, 2020 Mar. PMID 31838392
  5. Differential gene expression associated with dietary methylmercury (MeHg) exposure in rainbow trout (Oncorhynchus mykiss) and zebrafish (Danio rerio). Liu Q, et al. Ecotoxicology, 2013 May. PMID 23529582, Free PMC Article

See all (20) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Homology

Clone Names

  • MGC55951, MGC171719

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables actin binding IEA
Inferred from Electronic Annotation
more info
  
enables actin filament binding IBA
Inferred from Biological aspect of Ancestor
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
is_active_in actin filament IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
tropomyosin alpha-1 chain
Names
tropomyosin 1-1

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_001102629.2 → NP_001096099.1  tropomyosin alpha-1 chain isoform 3

    See identical proteins and their annotated locations for NP_001096099.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate downstream promoter and has additional differences in the coding region compared to variant 1. The resulting protein (isoform 3) is shorter and has a distinct N-terminus compared to isoform 1.
    Source sequence(s)
    CABZ01046954, CABZ01046957, EH542593
    UniProtKB/TrEMBL
    A0A8M1NDZ4, A7E2K1
    Related
    ENSDARP00000108795.1, ENSDART00000131098.3
    Conserved Domains (2) summary
    pfam00261
    Location:11 → 245
    Tropomyosin; Tropomyosin
    pfam07851
    Location:143 → 240
    TMPIT; TMPIT-like protein

  2. NM_001293168.1 → NP_001280097.1  tropomyosin alpha-1 chain isoform 2

    See identical proteins and their annotated locations for NP_001280097.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' coding region and 3' UTR compare to variant 1. The resulting protein (isoform 2) has a distinct C-terminus compared to isoform 1.
    Source sequence(s)
    EH433771, EH462147, EH467172
    UniProtKB/TrEMBL
    A0A8M1P687, F6NVA3, Q7ZVK9
    Related
    ENSDARP00000111203.3, ENSDART00000125892.3
    Conserved Domains (1) summary
    pfam00261
    Location:48 → 282
    Tropomyosin

  3. NM_200934.3 → NP_957228.2  tropomyosin alpha-1 chain isoform 1

    See identical proteins and their annotated locations for NP_957228.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes isoform 1.
    Source sequence(s)
    CABZ01046954, CABZ01046957, CABZ01046958, CABZ01046959
    UniProtKB/TrEMBL
    A0A8M1PFA6, F6P435, Q6NYQ0
    Related
    ENSDARP00000112368.3, ENSDART00000121680.3
    Conserved Domains (2) summary
    pfam00261
    Location:48 → 282
    Tropomyosin; Tropomyosin
    pfam07851
    Location:180 → 277
    TMPIT; TMPIT-like protein

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_007136.7 Reference GRCz11 Primary Assembly

    Range
    33192796..33250323
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068217345.1 → XP_068073446.1  tropomyosin alpha-1 chain isoform X16

  2. XM_068217344.1 → XP_068073445.1  tropomyosin alpha-1 chain isoform X10

  3. XM_009298155.4 → XP_009296430.1  tropomyosin alpha-1 chain isoform X6

    UniProtKB/TrEMBL
    A0A8M3APV7
    Conserved Domains (2) summary
    pfam00261
    Location:48 → 282
    Tropomyosin; Tropomyosin
    pfam07851
    Location:180 → 277
    TMPIT; TMPIT-like protein

  4. XM_068217342.1 → XP_068073443.1  tropomyosin alpha-1 chain isoform X8

  5. XM_068217343.1 → XP_068073444.1  tropomyosin alpha-1 chain isoform X9

  6. XM_005174377.5 → XP_005174434.1  tropomyosin alpha-1 chain isoform X4

    UniProtKB/TrEMBL
    A0A8M2BLM4
    Conserved Domains (2) summary
    pfam00261
    Location:48 → 282
    Tropomyosin; Tropomyosin
    pfam07851
    Location:180 → 277
    TMPIT; TMPIT-like protein

  7. XM_017354064.3 → XP_017209553.1  tropomyosin alpha-1 chain isoform X7

    UniProtKB/TrEMBL
    A0A8M6Z4C1
    Conserved Domains (1) summary
    pfam00261
    Location:48 → 280
    Tropomyosin

  8. XM_005174371.5 → XP_005174428.1  tropomyosin alpha-1 chain isoform X2

    UniProtKB/TrEMBL
    A0A8M2BLW8
    Conserved Domains (1) summary
    pfam00261
    Location:48 → 282
    Tropomyosin

  9. XM_005174375.5 → XP_005174432.2  tropomyosin alpha-1 chain isoform X1

    UniProtKB/TrEMBL
    A0A1L6UW63, E7FBZ3
    Related
    ENSDARP00000002483.9, ENSDART00000014851.9
    Conserved Domains (1) summary
    pfam00261
    Location:48 → 282
    Tropomyosin

  10. XM_021470465.2 → XP_021326140.1  tropomyosin alpha-1 chain isoform X3

    UniProtKB/TrEMBL
    A0A8M9PYA8
    Conserved Domains (1) summary
    pfam00261
    Location:48 → 282
    Tropomyosin

  11. XM_068217346.1 → XP_068073447.1  tropomyosin alpha-1 chain isoform X17

  12. XM_068217347.1 → XP_068073448.1  tropomyosin alpha-1 chain isoform X18

  13. XM_068217341.1 → XP_068073442.1  tropomyosin alpha-1 chain isoform X5

  14. XM_021470467.2 → XP_021326142.1  tropomyosin alpha-1 chain isoform X15

    UniProtKB/TrEMBL
    A0A8M9P6D8
    Conserved Domains (1) summary
    pfam00261
    Location:11 → 243
    Tropomyosin

  15. XM_005174385.5 → XP_005174442.1  tropomyosin alpha-1 chain isoform X14

    UniProtKB/TrEMBL
    A0A8M2BLW9
    Conserved Domains (1) summary
    pfam00261
    Location:11 → 243
    Tropomyosin; Tropomyosin

  16. XM_009298156.4 → XP_009296431.1  tropomyosin alpha-1 chain isoform X12

    UniProtKB/TrEMBL
    A0A8M3AZU4
    Conserved Domains (2) summary
    pfam00261
    Location:11 → 245
    Tropomyosin; Tropomyosin
    pfam07851
    Location:143 → 240
    TMPIT; TMPIT-like protein

  17. XM_021470466.2 → XP_021326141.1  tropomyosin alpha-1 chain isoform X13

    UniProtKB/TrEMBL
    A0A8M9PUV7
    Conserved Domains (1) summary
    pfam00261
    Location:11 → 245
    Tropomyosin

  18. XM_005174381.5 → XP_005174438.1  tropomyosin alpha-1 chain isoform X11

    UniProtKB/TrEMBL
    A0A2R8RQ88, A0A8M2BLN3
    Related
    ENSDARP00000150453.1, ENSDART00000192378.1
    Conserved Domains (2) summary
    pfam00261
    Location:11 → 245
    Tropomyosin; Tropomyosin
    pfam07851
    Location:143 → 237
    TMPIT; TMPIT-like protein
Nucleotide Protein Strain
Heading Accession and Version

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