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Zyx zyxin [ Rattus norvegicus (Norway rat) ]

Gene ID: 114636, updated on 12-Jan-2022

Summary

Official Symbol
Zyxprovided by RGD
Official Full Name
zyxinprovided by RGD
Primary source
RGD:620698
See related
Ensembl:ENSRNOG00000017354
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
Summary
Predicted to enable metal ion binding activity. Involved in regulation of inflammatory response. Predicted to be located in several cellular components, including actin cytoskeleton; adherens junction; and phagocytic vesicle. Predicted to be active in cytoplasm; focal adhesion; and stress fiber. Orthologous to human ZYX (zyxin). [provided by Alliance of Genome Resources, Nov 2021]
Expression
Biased expression in Lung (RPKM 240.8), Spleen (RPKM 168.1) and 9 other tissues See more
Orthologs
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Genomic context

See Zyx in Genome Data Viewer
Location:
4q24
Exon count:
11
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (71236767..71246553)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (71740188..71749386)

Chromosome 4 - NC_051339.1Genomic Context describing neighboring genes Neighboring gene chloride voltage-gated channel 1 Neighboring gene family with sequence similarity 131, member B Neighboring gene uncharacterized LOC120102260 Neighboring gene Eph receptor A1 Neighboring gene uncharacterized LOC120102261 Neighboring gene taste receptor, type 2, member 143

Genomic regions, transcripts, and products

Expression

  • 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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in cell-matrix adhesion ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cellular response to interferon-gamma ISO
Inferred from Sequence Orthology
more info
 
involved_in integrin-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in integrin-mediated signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of inflammatory response IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in stress fiber assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in transforming growth factor beta receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in transforming growth factor beta receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in actin cytoskeleton ISO
Inferred from Sequence Orthology
more info
 
located_in adherens junction ISO
Inferred from Sequence Orthology
more info
 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytosol IEA
Inferred from Electronic Annotation
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
is_active_in focal adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in focal adhesion ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in phagocytic vesicle ISO
Inferred from Sequence Orthology
more info
 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in stress fiber IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in stress fiber ISO
Inferred from Sequence Orthology
more info
 

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_001398717.1NP_001385646.1  zyxin isoform 1

    Status: VALIDATED

    Source sequence(s)
    JACYVU010000141
  2. NM_001398718.1NP_001385647.1  zyxin isoform 2

    Status: VALIDATED

    Source sequence(s)
    JACYVU010000141
  3. NM_053761.2NP_446213.1  zyxin isoform 1

    Status: VALIDATED

    Source sequence(s)
    JACYVU010000141
    UniProtKB/TrEMBL
    D4A7U1
    Related
    ENSRNOP00000023537.6
    Conserved Domains (5) summary
    cd09353
    Location:436495
    LIM2_Zyxin; The second LIM domain of Zyxin
    cd09435
    Location:496562
    LIM3_Zyxin; The third LIM domain of Zyxin
    PHA03247
    Location:3295
    PHA03247; large tegument protein UL36; Provisional
    PRK10263
    Location:177396
    PRK10263; DNA translocase FtsK; Provisional
    cl02475
    Location:343429
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051339.1 Reference mRatBN7.2 Primary Assembly

    Range
    71236767..71246553
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017592382.2XP_017447871.1  zyxin isoform X4

    UniProtKB/TrEMBL
    D4A7U1
    Conserved Domains (5) summary
    cd09353
    Location:436495
    LIM2_Zyxin; The second LIM domain of Zyxin
    cd09435
    Location:496562
    LIM3_Zyxin; The third LIM domain of Zyxin
    PHA03247
    Location:3295
    PHA03247; large tegument protein UL36; Provisional
    PRK10263
    Location:177396
    PRK10263; DNA translocase FtsK; Provisional
    cl02475
    Location:343429
    LIM; LIM is a small protein-protein interaction domain, containing two zinc fingers
  2. XM_006236389.4XP_006236451.1  zyxin isoform X2

    Conserved Domains (3) summary
    cd09349
    Location:415501
    LIM1_Zyxin; The first LIM domain of Zyxin
    cd09353
    Location:508567
    LIM2_Zyxin; The second LIM domain of Zyxin
    cd09435
    Location:568634
    LIM3_Zyxin; The third LIM domain of Zyxin
  3. XM_039106915.1XP_038962843.1  zyxin isoform X3

    Related
    ENSRNOP00000097981.1, ENSRNOT00000104565.1
    Conserved Domains (4) summary
    cd09349
    Location:414500
    LIM1_Zyxin; The first LIM domain of Zyxin
    cd09353
    Location:507566
    LIM2_Zyxin; The second LIM domain of Zyxin
    cd09435
    Location:567633
    LIM3_Zyxin; The third LIM domain of Zyxin
    PHA03247
    Location:2398
    PHA03247; large tegument protein UL36; Provisional
  4. XM_006236388.4XP_006236450.1  zyxin isoform X1

    See identical proteins and their annotated locations for XP_006236450.1

    Related
    ENSRNOP00000094013.1, ENSRNOT00000115210.1
    Conserved Domains (3) summary
    cd09349
    Location:445531
    LIM1_Zyxin; The first LIM domain of Zyxin
    cd09353
    Location:538597
    LIM2_Zyxin; The second LIM domain of Zyxin
    cd09435
    Location:598664
    LIM3_Zyxin; The third LIM domain of Zyxin
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