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    Fn1 fibronectin 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 25661, updated on 4-Dec-2018

    Summary

    Official Symbol
    Fn1provided by RGD
    Official Full Name
    fibronectin 1provided by RGD
    Primary source
    RGD:2624
    See related
    Ensembl:ENSRNOG00000014288
    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
    fn-1; FIBNEC
    Summary
    extracellular matrix component; may play a role in fibrosis and tumor metastasis [RGD, Feb 2006]
    Expression
    Biased expression in Liver (RPKM 1817.5), Lung (RPKM 1002.6) and 6 other tissues See more
    Orthologs

    Genomic context

    See Fn1 in Genome Data Viewer
    Location:
    9q33
    Exon count:
    46
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (78900111..78969018, complement)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 9 NC_005108.3 (78674437..78743423, complement)

    Chromosome 9 - NC_005108.4Genomic Context describing neighboring genes Neighboring gene 5-aminoimidazole-4-carboxamide ribonucleotide formyltransferase/IMP cyclohydrolase Neighboring gene bifunctional purine biosynthesis protein PURH-like Neighboring gene uncharacterized LOC102554186 Neighboring gene nucleolar protein 56-like

    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

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    chaperone binding IEA
    Inferred from Electronic Annotation
    more info
     
    chaperone binding ISO
    Inferred from Sequence Orthology
    more info
     
    disordered domain specific binding IEA
    Inferred from Electronic Annotation
    more info
     
    disordered domain specific binding ISO
    Inferred from Sequence Orthology
    more info
     
    enzyme binding ISO
    Inferred from Sequence Orthology
    more info
     
    extracellular matrix structural constituent TAS
    Traceable Author Statement
    more info
    PubMed 
    heparin binding IEA
    Inferred from Electronic Annotation
    more info
     
    identical protein binding IEA
    Inferred from Electronic Annotation
    more info
     
    identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    integrin binding IEA
    Inferred from Electronic Annotation
    more info
     
    integrin binding ISO
    Inferred from Sequence Orthology
    more info
     
    mercury ion binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    peptidase activator activity IEA
    Inferred from Electronic Annotation
    more info
     
    peptidase activator activity ISO
    Inferred from Sequence Orthology
    more info
     
    protease binding IEA
    Inferred from Electronic Annotation
    more info
     
    protease binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protease binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein C-terminus binding IEA
    Inferred from Electronic Annotation
    more info
     
    protein C-terminus binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    proteoglycan binding IEA
    Inferred from Electronic Annotation
    more info
     
    proteoglycan binding ISO
    Inferred from Sequence Orthology
    more info
     
    signaling receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    acute-phase response IEA
    Inferred from Electronic Annotation
    more info
     
    angiogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    calcium-independent cell-matrix adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    calcium-independent cell-matrix adhesion ISO
    Inferred from Sequence Orthology
    more info
     
    cell activation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cell adhesion ISO
    Inferred from Sequence Orthology
    more info
     
    cell-matrix adhesion IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cell-matrix adhesion ISO
    Inferred from Sequence Orthology
    more info
     
    cell-substrate junction assembly IEA
    Inferred from Electronic Annotation
    more info
     
    cell-substrate junction assembly ISO
    Inferred from Sequence Orthology
    more info
     
    cellular response to BMP stimulus IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    cellular response to amyloid-beta IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    cellular response to angiotensin IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    cellular response to glucose stimulus IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    cellular response to interleukin-1 IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    cellular response to lipopolysaccharide IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    cellular response to mercury ion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cellular response to platelet-derived growth factor stimulus IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    cellular response to prostaglandin E stimulus IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    cellular response to transforming growth factor beta stimulus IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    cellular response to vascular endothelial growth factor stimulus IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    endodermal cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    endodermal cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    extracellular matrix organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    glial cell migration IDA
    Inferred from Direct Assay
    more info
    PubMed 
    integrin activation IEA
    Inferred from Electronic Annotation
    more info
     
    integrin activation ISO
    Inferred from Sequence Orthology
    more info
     
    interaction with other organism via secreted substance involved in symbiotic interaction IEA
    Inferred from Electronic Annotation
    more info
     
    interaction with other organism via secreted substance involved in symbiotic interaction ISO
    Inferred from Sequence Orthology
    more info
     
    interaction with symbiont IEA
    Inferred from Electronic Annotation
    more info
     
    interaction with symbiont ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of transforming growth factor-beta secretion IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of transforming growth factor-beta secretion ISO
    Inferred from Sequence Orthology
    more info
     
    neural crest cell migration involved in autonomic nervous system development IEA
    Inferred from Electronic Annotation
    more info
     
    neural crest cell migration involved in autonomic nervous system development ISO
    Inferred from Sequence Orthology
    more info
     
    ossification TAS
    Traceable Author Statement
    more info
    PubMed 
    peptide cross-linking IEA
    Inferred from Electronic Annotation
    more info
     
    peptide cross-linking ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of axon extension IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of axon extension ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of cell migration IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of cell proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of chemotaxis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of fibroblast proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of fibroblast proliferation ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of peptidase activity IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of substrate-dependent cell migration, cell attachment to substrate IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of substrate-dependent cell migration, cell attachment to substrate ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of ERK1 and ERK2 cascade IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of ERK1 and ERK2 cascade ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of cell shape IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of protein phosphorylation ISO
    Inferred from Sequence Orthology
    more info
     
    response to activity IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to drug IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to glucocorticoid IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to iron ion IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to ischemia IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to ozone IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to wounding IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    substrate adhesion-dependent cell spreading IEA
    Inferred from Electronic Annotation
    more info
     
    substrate adhesion-dependent cell spreading ISO
    Inferred from Sequence Orthology
    more info
     
    wound healing IEA
    Inferred from Electronic Annotation
    more info
     
    wound healing ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    apical plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    apical plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    basement membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    basement membrane IEA
    Inferred from Electronic Annotation
    more info
     
    basement membrane ISO
    Inferred from Sequence Orthology
    more info
     
    collagen-containing extracellular matrix ISO
    Inferred from Sequence Orthology
    more info
     
    endoplasmic reticulum-Golgi intermediate compartment IEA
    Inferred from Electronic Annotation
    more info
     
    endoplasmic reticulum-Golgi intermediate compartment ISO
    Inferred from Sequence Orthology
    more info
     
    extracellular exosome IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular exosome ISO
    Inferred from Sequence Orthology
    more info
     
    extracellular matrix ISO
    Inferred from Sequence Orthology
    more info
     
    extracellular matrix TAS
    Traceable Author Statement
    more info
    PubMed 
    extracellular region IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    extracellular space ISO
    Inferred from Sequence Orthology
    more info
     
    fibrinogen complex IEA
    Inferred from Electronic Annotation
    more info
     
    fibrinogen complex ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    fibronectin
    Names
    FN
    fibronectin 2
    fibronectin 3

    NCBI Reference Sequences (RefSeq)

    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_019143.2NP_062016.2  fibronectin precursor

      See identical proteins and their annotated locations for NP_062016.2

      Status: VALIDATED

      Source sequence(s)
      AABR07068041, AABR07068042
      UniProtKB/TrEMBL
      A0A096P6L8
      Related
      ENSRNOP00000019772.4, ENSRNOT00000019772.6
      Conserved Domains (6) summary
      smart00059
      Location:353401
      FN2; Fibronectin type 2 domain
      smart00058
      Location:187231
      FN1; Fibronectin type 1 domain
      cd00061
      Location:23842423
      FN1; Fibronectin type 1 domain, approximately 40 residue long with two conserved disulfide bridges. FN1 is one of three types of internal repeats which combine to form larger domains within fibronectin. Fibronectin, a plasma protein that binds cell surfaces ...
      cd00063
      Location:19942074
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00039
      Location:232271
      fn1; Fibronectin type I domain
      pfam00041
      Location:15391620
      fn3; Fibronectin type III domain

    RefSeqs of Annotated Genomes: Rattus norvegicus 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 Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005108.4 Reference Rnor_6.0 Primary Assembly

      Range
      78900111..78969018 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006245154.3XP_006245216.1  fibronectin isoform X5

      Conserved Domains (6) summary
      smart00059
      Location:353401
      FN2; Fibronectin type 2 domain
      smart00058
      Location:187231
      FN1; Fibronectin type 1 domain
      cd00061
      Location:22642303
      FN1; Fibronectin type 1 domain, approximately 40 residue long with two conserved disulfide bridges. FN1 is one of three types of internal repeats which combine to form larger domains within fibronectin. Fibronectin, a plasma protein that binds cell surfaces ...
      cd00063
      Location:19942074
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00039
      Location:232271
      fn1; Fibronectin type I domain
      pfam00041
      Location:15391620
      fn3; Fibronectin type III domain
    2. XM_006245150.3XP_006245212.1  fibronectin isoform X1

      Conserved Domains (6) summary
      smart00059
      Location:353401
      FN2; Fibronectin type 2 domain
      smart00058
      Location:187231
      FN1; Fibronectin type 1 domain
      cd00061
      Location:23592398
      FN1; Fibronectin type 1 domain, approximately 40 residue long with two conserved disulfide bridges. FN1 is one of three types of internal repeats which combine to form larger domains within fibronectin. Fibronectin, a plasma protein that binds cell surfaces ...
      cd00063
      Location:19942074
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00039
      Location:232271
      fn1; Fibronectin type I domain
      pfam00041
      Location:15391620
      fn3; Fibronectin type III domain
    3. XM_006245159.3XP_006245221.1  fibronectin isoform X10

      Conserved Domains (6) summary
      smart00059
      Location:353401
      FN2; Fibronectin type 2 domain
      smart00058
      Location:187231
      FN1; Fibronectin type 1 domain
      cd00061
      Location:20832122
      FN1; Fibronectin type 1 domain, approximately 40 residue long with two conserved disulfide bridges. FN1 is one of three types of internal repeats which combine to form larger domains within fibronectin. Fibronectin, a plasma protein that binds cell surfaces ...
      cd00063
      Location:18131893
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00039
      Location:232271
      fn1; Fibronectin type I domain
      pfam00041
      Location:14481529
      fn3; Fibronectin type III domain
    4. XM_006245157.3XP_006245219.1  fibronectin isoform X7

      Conserved Domains (6) summary
      smart00059
      Location:353401
      FN2; Fibronectin type 2 domain
      smart00058
      Location:187231
      FN1; Fibronectin type 1 domain
      cd00061
      Location:21782217
      FN1; Fibronectin type 1 domain, approximately 40 residue long with two conserved disulfide bridges. FN1 is one of three types of internal repeats which combine to form larger domains within fibronectin. Fibronectin, a plasma protein that binds cell surfaces ...
      cd00063
      Location:18131893
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00039
      Location:232271
      fn1; Fibronectin type I domain
      pfam00041
      Location:14481529
      fn3; Fibronectin type III domain
    5. XM_006245156.3XP_006245218.1  fibronectin isoform X6

      See identical proteins and their annotated locations for XP_006245218.1

      Conserved Domains (6) summary
      smart00059
      Location:353401
      FN2; Fibronectin type 2 domain
      smart00058
      Location:187231
      FN1; Fibronectin type 1 domain
      cd00061
      Location:22032242
      FN1; Fibronectin type 1 domain, approximately 40 residue long with two conserved disulfide bridges. FN1 is one of three types of internal repeats which combine to form larger domains within fibronectin. Fibronectin, a plasma protein that binds cell surfaces ...
      cd00063
      Location:18131893
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00039
      Location:232271
      fn1; Fibronectin type I domain
      pfam00041
      Location:14481529
      fn3; Fibronectin type III domain
    6. XM_006245158.3XP_006245220.1  fibronectin isoform X9

      Conserved Domains (6) summary
      smart00059
      Location:353401
      FN2; Fibronectin type 2 domain
      smart00058
      Location:187231
      FN1; Fibronectin type 1 domain
      cd00061
      Location:21732212
      FN1; Fibronectin type 1 domain, approximately 40 residue long with two conserved disulfide bridges. FN1 is one of three types of internal repeats which combine to form larger domains within fibronectin. Fibronectin, a plasma protein that binds cell surfaces ...
      cd00063
      Location:19031983
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00039
      Location:232271
      fn1; Fibronectin type I domain
      pfam00041
      Location:14481529
      fn3; Fibronectin type III domain
    7. XM_006245153.3XP_006245215.1  fibronectin isoform X4

      Conserved Domains (6) summary
      smart00059
      Location:353401
      FN2; Fibronectin type 2 domain
      smart00058
      Location:187231
      FN1; Fibronectin type 1 domain
      cd00061
      Location:22682307
      FN1; Fibronectin type 1 domain, approximately 40 residue long with two conserved disulfide bridges. FN1 is one of three types of internal repeats which combine to form larger domains within fibronectin. Fibronectin, a plasma protein that binds cell surfaces ...
      cd00063
      Location:19031983
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00039
      Location:232271
      fn1; Fibronectin type I domain
      pfam00041
      Location:14481529
      fn3; Fibronectin type III domain
    8. XM_006245152.3XP_006245214.1  fibronectin isoform X3

      See identical proteins and their annotated locations for XP_006245214.1

      Conserved Domains (6) summary
      smart00059
      Location:353401
      FN2; Fibronectin type 2 domain
      smart00058
      Location:187231
      FN1; Fibronectin type 1 domain
      cd00061
      Location:22932332
      FN1; Fibronectin type 1 domain, approximately 40 residue long with two conserved disulfide bridges. FN1 is one of three types of internal repeats which combine to form larger domains within fibronectin. Fibronectin, a plasma protein that binds cell surfaces ...
      cd00063
      Location:19031983
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00039
      Location:232271
      fn1; Fibronectin type I domain
      pfam00041
      Location:14481529
      fn3; Fibronectin type III domain
    9. XM_017596301.1XP_017451790.1  fibronectin isoform X8

    10. XM_006245151.3XP_006245213.1  fibronectin isoform X2

      See identical proteins and their annotated locations for XP_006245213.1

      UniProtKB/TrEMBL
      F1LST1
      Related
      ENSRNOP00000054395.4, ENSRNOT00000057585.4
      Conserved Domains (6) summary
      smart00059
      Location:353401
      FN2; Fibronectin type 2 domain
      smart00058
      Location:187231
      FN1; Fibronectin type 1 domain
      cd00061
      Location:22942333
      FN1; Fibronectin type 1 domain, approximately 40 residue long with two conserved disulfide bridges. FN1 is one of three types of internal repeats which combine to form larger domains within fibronectin. Fibronectin, a plasma protein that binds cell surfaces ...
      cd00063
      Location:19041984
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      pfam00039
      Location:232271
      fn1; Fibronectin type I domain
      pfam00041
      Location:15391620
      fn3; Fibronectin type III domain

    Alternate Rn_Celera

    Genomic

    1. AC_000077.1 Alternate Rn_Celera

      Range
      70607233..70675716 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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