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    Ablim1 actin-binding LIM protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 307989, updated on 9-Dec-2024

    Summary

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    Symbol
    Ablim1provided by RGD
    Full Name
    actin-binding LIM protein 1provided by RGD
    Primary source
    RGD:1565768
    See related
    EnsemblRapid:ENSRNOG00000046333 AllianceGenome:RGD:1565768
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1565768
    Summary
    Predicted to enable actin binding activity. Predicted to be involved in cytoskeleton organization. Predicted to act upstream of or within plasma membrane bounded cell projection organization and positive regulation of transcription by RNA polymerase II. Predicted to be located in lamellipodium and stress fiber. Predicted to be active in postsynaptic density. Orthologous to human ABLIM1 (actin binding LIM protein 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Heart (RPKM 402.2), Thymus (RPKM 205.0) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ablim1 in Genome Data Viewer
    Location:
    1q55
    Exon count:
    36
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (266088868..266377169, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (256083747..256372075, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (277853877..278043096, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene von Willebrand factor A domain containing 2 Neighboring gene actin filament associated protein 1-like 2 Neighboring gene uncharacterized LOC134485257 Neighboring gene uncharacterized LOC120100065 Neighboring gene uncharacterized LOC120100066 Neighboring gene uncharacterized LOC134485258

    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. Molecular characterization of abLIM, a novel actin-binding and double zinc finger protein. Roof DJ, et al. J Cell Biol, 1997 Aug 11. PMID 9245787, Free PMC Article
    2. A POU domain transcription factor-dependent program regulates axon pathfinding in the vertebrate visual system. Erkman L, et al. Neuron, 2000 Dec. PMID 11163266
    3. Two novel members of the ABLIM protein family, ABLIM-2 and -3, associate with STARS and directly bind F-actin. Barrientos T, et al. J Biol Chem, 2007 Mar 16. PMID 17194709
    4. miR-129-3p controls cilia assembly by regulating CP110 and actin dynamics. Cao J, et al. Nat Cell Biol, 2012 Jun 10. PMID 22684256
    5. Protein trafficking and anchoring complexes revealed by proteomic analysis of inward rectifier potassium channel (Kir2.x)-associated proteins. Leonoudakis D, et al. J Biol Chem, 2004 May 21. PMID 15024025

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC125264

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables actin binding ISO
    Inferred from Sequence Orthology
    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
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within axon guidance ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in cilium assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within cilium assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cytoskeleton organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in lamellipodium assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within lamellipodium assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in actin cytoskeleton IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in actin cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in lamellipodium ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in postsynaptic density ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in postsynaptic density ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in stress fiber IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in stress fiber ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    actin-binding LIM protein 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_001395154.1 → NP_001382083.1  actin-binding LIM protein 1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A0A8I5Y6A1, A0A8I5ZVV8
      Related
      ENSRNOP00000076718.2, ENSRNOT00000106287.2
      Conserved Domains (5) summary
      smart00153
      Location:828 → 863
      VHP; Villin headpiece domain
      cd09327
      Location:100 → 151
      LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins
      cd09328
      Location:156 → 211
      LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins
      cd09329
      Location:227 → 278
      LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins
      cd09330
      Location:286 → 341
      LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins

    2. NM_001395155.1 → NP_001382084.1  actin-binding LIM protein 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A0A0G2JW01, Q3KR72
      Related
      ENSRNOP00000069687.3, ENSRNOT00000078416.3
      Conserved Domains (3) summary
      smart00153
      Location:392 → 427
      VHP; Villin headpiece domain
      pfam16182
      Location:33 → 391
      AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM
      cl02475
      Location:1 → 24
      LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

    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_086019.1 Reference GRCr8

      Range
      266088868..266377169 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039110220.2 → XP_038966148.1  actin-binding LIM protein 1 isoform X31

      UniProtKB/TrEMBL
      A0A8I6A592
      Related
      ENSRNOP00000089021.2, ENSRNOT00000108182.2
      Conserved Domains (6) summary
      smart00153
      Location:734 → 769
      VHP; Villin headpiece domain
      cd09327
      Location:60 → 111
      LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins
      cd09328
      Location:116 → 171
      LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins
      cd09329
      Location:187 → 238
      LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins
      cd09330
      Location:246 → 301
      LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins
      pfam16182
      Location:338 → 733
      AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM

    2. XM_039110327.2 → XP_038966255.1  actin-binding LIM protein 1 isoform X32

      UniProtKB/TrEMBL
      A0A8I5ZVV8
      Related
      ENSRNOP00000082920.2, ENSRNOT00000094452.2
      Conserved Domains (6) summary
      smart00153
      Location:723 → 758
      VHP; Villin headpiece domain
      cd09327
      Location:126 → 177
      LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins
      cd09328
      Location:182 → 237
      LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins
      cd09329
      Location:253 → 304
      LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins
      cd09330
      Location:312 → 367
      LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins
      pfam16182
      Location:376 → 722
      AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM

    3. XM_039110316.2 → XP_038966244.1  actin-binding LIM protein 1 isoform X30

      UniProtKB/TrEMBL
      A0A8I5ZVV8
      Conserved Domains (6) summary
      smart00153
      Location:743 → 778
      VHP; Villin headpiece domain
      cd09327
      Location:99 → 150
      LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins
      cd09328
      Location:155 → 210
      LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins
      cd09329
      Location:226 → 277
      LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins
      cd09330
      Location:285 → 340
      LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins
      pfam16182
      Location:349 → 742
      AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM

    4. XM_063288242.1 → XP_063144312.1  actin-binding LIM protein 1 isoform X27

    5. XM_063288169.1 → XP_063144239.1  actin-binding LIM protein 1 isoform X6

      UniProtKB/TrEMBL
      F1LWK7

    6. XM_063288185.1 → XP_063144255.1  actin-binding LIM protein 1 isoform X9

      UniProtKB/TrEMBL
      F1LWK7

    7. XM_063288152.1 → XP_063144222.1  actin-binding LIM protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A8I6A592

    8. XM_063288149.1 → XP_063144219.1  actin-binding LIM protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A8I6A592

    9. XM_063288164.1 → XP_063144234.1  actin-binding LIM protein 1 isoform X4

      UniProtKB/TrEMBL
      F1LWK7

    10. XM_063288167.1 → XP_063144237.1  actin-binding LIM protein 1 isoform X5

      UniProtKB/TrEMBL
      F1LWK7

    11. XM_063288159.1 → XP_063144229.1  actin-binding LIM protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A8I6A592

    12. XM_063288172.1 → XP_063144242.1  actin-binding LIM protein 1 isoform X7

      UniProtKB/TrEMBL
      F1LWK7

    13. XM_063288216.1 → XP_063144286.1  actin-binding LIM protein 1 isoform X16

      UniProtKB/TrEMBL
      F1LWK7

    14. XM_063288221.1 → XP_063144291.1  actin-binding LIM protein 1 isoform X18

      UniProtKB/TrEMBL
      F1LWK7

    15. XM_063288189.1 → XP_063144259.1  actin-binding LIM protein 1 isoform X10

      UniProtKB/TrEMBL
      F1LWK7

    16. XM_063288194.1 → XP_063144264.1  actin-binding LIM protein 1 isoform X11

      UniProtKB/TrEMBL
      F1LWK7

    17. XM_063288206.1 → XP_063144276.1  actin-binding LIM protein 1 isoform X14

      UniProtKB/TrEMBL
      F1LWK7

    18. XM_063288177.1 → XP_063144247.1  actin-binding LIM protein 1 isoform X8

      UniProtKB/TrEMBL
      F1LWK7

    19. XM_063288202.1 → XP_063144272.1  actin-binding LIM protein 1 isoform X12

      UniProtKB/TrEMBL
      F1LWK7

    20. XM_063288205.1 → XP_063144275.1  actin-binding LIM protein 1 isoform X13

      UniProtKB/TrEMBL
      F1LWK7

    21. XM_063288219.1 → XP_063144289.1  actin-binding LIM protein 1 isoform X17

      UniProtKB/TrEMBL
      F1LWK7

    22. XM_063288210.1 → XP_063144280.1  actin-binding LIM protein 1 isoform X15

      UniProtKB/TrEMBL
      F1LWK7

    23. XM_063288237.1 → XP_063144307.1  actin-binding LIM protein 1 isoform X25

      UniProtKB/TrEMBL
      F1LWK7

    24. XM_063288226.1 → XP_063144296.1  actin-binding LIM protein 1 isoform X19

      UniProtKB/TrEMBL
      F1LWK7

    25. XM_063288235.1 → XP_063144305.1  actin-binding LIM protein 1 isoform X24

      UniProtKB/TrEMBL
      F1LWK7

    26. XM_063288228.1 → XP_063144298.1  actin-binding LIM protein 1 isoform X21

      UniProtKB/TrEMBL
      F1LWK7

    27. XM_063288233.1 → XP_063144303.1  actin-binding LIM protein 1 isoform X22

      UniProtKB/TrEMBL
      F1LWK7

    28. XM_063288227.1 → XP_063144297.1  actin-binding LIM protein 1 isoform X20

      UniProtKB/TrEMBL
      F1LWK7

    29. XM_039110273.2 → XP_038966201.1  actin-binding LIM protein 1 isoform X23

      Conserved Domains (5) summary
      cd09327
      Location:60 → 111
      LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins
      cd09328
      Location:116 → 171
      LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins
      cd09329
      Location:187 → 238
      LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins
      cd09330
      Location:246 → 301
      LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins
      pfam16182
      Location:354 → 576
      AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM

    30. XM_039110288.2 → XP_038966216.1  actin-binding LIM protein 1 isoform X26

      Conserved Domains (5) summary
      cd09327
      Location:60 → 111
      LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins
      cd09328
      Location:116 → 171
      LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins
      cd09329
      Location:187 → 238
      LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins
      cd09330
      Location:246 → 301
      LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins
      pfam16182
      Location:354 → 501
      AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM

    31. XM_039110296.2 → XP_038966224.1  actin-binding LIM protein 1 isoform X28

      Conserved Domains (5) summary
      cd09327
      Location:60 → 111
      LIM1_abLIM; The first LIM domain of actin binding LIM (abLIM) proteins
      cd09328
      Location:116 → 171
      LIM2_abLIM; The second LIM domain on actin binding LIM (abLIM) proteins
      cd09329
      Location:187 → 238
      LIM3_abLIM; The third LIM domain of actin binding LIM (abLIM) proteins
      cd09330
      Location:246 → 301
      LIM4_abLIM; The fourth LIM domain of actin binding LIM (abLIM) proteins
      pfam16182
      Location:354 → 431
      AbLIM_anchor; Putative adherens-junction anchoring region of AbLIM

    32. XM_063288249.1 → XP_063144319.1  actin-binding LIM protein 1 isoform X29

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001044394.1: Suppressed sequence

      Description
      NM_001044394.1: This RefSeq record was removed by NCBI staff. Contact [email protected] for further information.

    2. NM_001372054.2: Suppressed sequence

      Description
      NM_001372054.2: This RefSeq record was removed by NCBI staff. Contact [email protected] for further information.
    Nucleotide Protein Strain
    Heading Accession and Version

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