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ablim3 actin binding LIM protein family, member 3 [ Danio rerio (zebrafish) ]

Gene ID: 566821, updated on 17-Aug-2024

Summary

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Official Symbol
ablim3provided by ZNC
Official Full Name
actin binding LIM protein family, member 3provided by ZNC
Primary source
ZFIN:ZDB-GENE-070112-1122
See related
Ensembl:ENSDARG00000088168 AllianceGenome:ZFIN:ZDB-GENE-070112-1122
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
fb51g06; im:7152284; wu:fb51g06; zgc:158673; zgc:198293; si:dkey-23o10.3
Summary
Predicted to enable actin filament binding activity. Predicted to be involved in cilium assembly and lamellipodium assembly. Predicted to act upstream of or within actin cytoskeleton organization and transcription, DNA-templated. Predicted to be located in cytoplasm. Predicted to be active in stress fiber. Is expressed in notochord and somite. Orthologous to human ABLIM3 (actin binding LIM protein family member 3). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 14
Exon count:
23
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 14 NC_007125.7 (34634140..34771923, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 14 NC_007125.6 (34295075..34431624, complement)

Chromosome 14 - NC_007125.7Genomic Context describing neighboring genes Neighboring gene actin filament associated protein 1-like 1a Neighboring gene PTTG1 regulator of sister chromatid separation, securin Neighboring gene SH3 domain and tetratricopeptide repeats 2 Neighboring gene adrenoceptor beta 2, surface a

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. miR-129-3p controls cilia assembly by regulating CP110 and actin dynamics. Cao J, et al. Nat Cell Biol, 2012 Jun 10. PMID 22684256
  2. Evolution and expression of the phosphodiesterase 6 genes unveils vertebrate novelty to control photosensitivity. Lagman D, et al. BMC Evol Biol, 2016 Jun 13. PMID 27296292, Free PMC Article
  3. A novel inducible mutagenesis screen enables to isolate and clone both embryonic and adult zebrafish mutants. Ma Z, et al. Sci Rep, 2017 Sep 4. PMID 28871129, Free PMC Article
  4. Contrasted innate responses to two viruses in zebrafish: insights into the ancestral repertoire of vertebrate IFN-stimulated genes. Briolat V, et al. J Immunol, 2014 May 1. PMID 24683187
  5. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC198293

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
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in cilium assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within cytoskeleton organization IEA
Inferred from Electronic Annotation
more info
  
involved_in lamellipodium assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in actin cytoskeleton IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
is_active_in stress fiber IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
actin-binding LIM protein 3
Names
actin-binding LIM protein

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_001080598.1 → NP_001074067.1  actin-binding LIM protein 3

    See identical proteins and their annotated locations for NP_001074067.1

    Status: PROVISIONAL

    Source sequence(s)
    BC129372
    UniProtKB/TrEMBL
    A0A8N7UYL2, A1L269, F1R1G1
    Related
    ENSDARP00000116596.2, ENSDART00000141157.5
    Conserved Domains (6) summary
    smart00153
    Location:648 → 683
    VHP; Villin headpiece domain
    cd09327
    Location:23 → 74
    LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins
    cd09328
    Location:79 → 134
    LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins
    cd09329
    Location:152 → 203
    LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins
    cd09330
    Location:211 → 266
    LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins
    pfam16182
    Location:294 → 647
    AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM

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_007125.7 Reference GRCz11 Primary Assembly

    Range
    34634140..34771923 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_021481045.1 → XP_021336720.1  actin-binding LIM protein 3 isoform X6

    UniProtKB/TrEMBL
    A0A8M9QP71
    Conserved Domains (6) summary
    smart00153
    Location:553 → 588
    VHP; Villin headpiece domain
    cd09327
    Location:24 → 75
    LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins
    cd09328
    Location:80 → 135
    LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins
    cd09329
    Location:153 → 204
    LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins
    cd09330
    Location:212 → 267
    LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins
    pfam16182
    Location:299 → 552
    AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM

  2. XM_005173323.4 → XP_005173380.1  actin-binding LIM protein 3 isoform X4

    UniProtKB/TrEMBL
    A0A8M2BKN0, H0WEN9
    Related
    ENSDARP00000125317.3, ENSDART00000150413.3
    Conserved Domains (6) summary
    smart00153
    Location:597 → 632
    VHP; Villin headpiece domain
    cd09327
    Location:24 → 75
    LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins
    cd09328
    Location:80 → 135
    LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins
    cd09329
    Location:153 → 204
    LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins
    cd09330
    Location:212 → 267
    LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins
    pfam16182
    Location:302 → 596
    AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM

  3. XM_021481044.1 → XP_021336719.1  actin-binding LIM protein 3 isoform X3

    UniProtKB/TrEMBL
    A0A8M9QGG2
    Conserved Domains (6) summary
    smart00153
    Location:603 → 638
    VHP; Villin headpiece domain
    cd09327
    Location:24 → 75
    LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins
    cd09328
    Location:80 → 135
    LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins
    cd09329
    Location:153 → 204
    LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins
    cd09330
    Location:212 → 267
    LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins
    pfam16182
    Location:276 → 602
    AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM

  4. XM_005173321.4 → XP_005173378.1  actin-binding LIM protein 3 isoform X2

    UniProtKB/TrEMBL
    A0A0R4IXJ5, A0A8M2BL22
    Related
    ENSDARP00000140642.2, ENSDART00000160598.2
    Conserved Domains (6) summary
    smart00153
    Location:649 → 684
    VHP; Villin headpiece domain
    cd09327
    Location:24 → 75
    LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins
    cd09328
    Location:80 → 135
    LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins
    cd09329
    Location:153 → 204
    LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins
    cd09330
    Location:212 → 267
    LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins
    pfam16182
    Location:295 → 648
    AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM

  5. XM_021481043.1 → XP_021336718.1  actin-binding LIM protein 3 isoform X1

    UniProtKB/TrEMBL
    A0A8M9QB40
    Conserved Domains (6) summary
    smart00153
    Location:655 → 690
    VHP; Villin headpiece domain
    cd09327
    Location:24 → 75
    LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins
    cd09328
    Location:80 → 135
    LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins
    cd09329
    Location:153 → 204
    LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins
    cd09330
    Location:212 → 267
    LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins
    pfam16182
    Location:295 → 654
    AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM

  6. XM_005173324.4 → XP_005173381.1  actin-binding LIM protein 3 isoform X5

    See identical proteins and their annotated locations for XP_005173381.1

    UniProtKB/TrEMBL
    A0A0R4IXP4, A0A8M2BKM8, B7ZVF6
    Related
    ENSDARP00000141374.2, ENSDART00000168910.3
    Conserved Domains (6) summary
    smart00153
    Location:596 → 631
    VHP; Villin headpiece domain
    cd09327
    Location:23 → 74
    LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins
    cd09328
    Location:79 → 134
    LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins
    cd09329
    Location:152 → 203
    LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins
    cd09330
    Location:211 → 266
    LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins
    pfam16182
    Location:301 → 595
    AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394919.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    136208..267253 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCz11 ALT_DRER_TU_2

Genomic

  1. NW_018395317.1 Reference GRCz11 ALT_DRER_TU_2

    Range
    138254..269168 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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