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    Resf1 retroelement silencing factor 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 316982, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Resf1provided by RGD
    Official Full Name
    retroelement silencing factor 1provided by RGD
    Primary source
    RGD:1309621
    See related
    Ensembl:ENSRNOG00000036913 AllianceGenome:RGD:1309621
    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
    RGD1309621
    Summary
    Predicted to enable histone methyltransferase binding activity. Predicted to be involved in negative regulation of single stranded viral RNA replication via double stranded DNA intermediate and positive regulation of DNA methylation-dependent heterochromatin assembly. Predicted to act upstream of or within response to bacterium. Predicted to be part of gamma-tubulin complex. Predicted to be active in nucleus. Orthologous to human RESF1 (retroelement silencing factor 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Lung (RPKM 253.1), Spleen (RPKM 247.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Resf1 in Genome Data Viewer
    Location:
    4q44
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (184057165..184093374)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (182325913..182362054)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (183879177..183905807)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene adenosylhomocysteinase-like Neighboring gene basic transcription factor 3, pseudogene 14 Neighboring gene uncharacterized LOC108350799 Neighboring gene ribosomal protein S8, pseudogene 18 Neighboring gene NSL1 component of MIS12 kinetochore complex, pseudogene 1

    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. A CRISPR knockout screen identifies SETDB1-target retroelement silencing factors in embryonic stem cells. Fukuda K, et al. Genome Res, 2018 Jun. PMID 29728365, Free PMC Article
    2. Impact of lactobacilli on orally acquired listeriosis. Archambaud C, et al. Proc Natl Acad Sci U S A, 2012 Oct 9. PMID 23012479, Free PMC Article
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables histone methyltransferase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables histone methyltransferase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of single stranded viral RNA replication via double stranded DNA intermediate ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA methylation-dependent heterochromatin formation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of DNA methylation-dependent heterochromatin formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within response to bacterium ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of gamma-tubulin complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    retroelement silencing factor 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_001427734.1 → NP_001414663.1  retroelement silencing factor 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004

    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_086022.1 Reference GRCr8

      Range
      184057165..184093374
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063286207.1 → XP_063142277.1  retroelement silencing factor 1 isoform X1

    2. XM_063286208.1 → XP_063142278.1  retroelement silencing factor 1 isoform X1

    3. XM_063286211.1 → XP_063142281.1  retroelement silencing factor 1 isoform X1

    4. XM_063286209.1 → XP_063142279.1  retroelement silencing factor 1 isoform X1

    5. XM_063286210.1 → XP_063142280.1  retroelement silencing factor 1 isoform X1

    6. XM_039108930.2 → XP_038964858.1  retroelement silencing factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZXS0, A6IN75
      Conserved Domains (1) summary
      pfam15395
      Location:447 → 1499
      DUF4617; Domain of unknown function (DUF4617)

    7. XM_039108935.2 → XP_038964863.1  retroelement silencing factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZXS0, A6IN75
      Conserved Domains (1) summary
      pfam15395
      Location:447 → 1499
      DUF4617; Domain of unknown function (DUF4617)

    8. XM_063286204.1 → XP_063142274.1  retroelement silencing factor 1 isoform X1

    9. XM_063286200.1 → XP_063142270.1  retroelement silencing factor 1 isoform X1

    10. XM_063286202.1 → XP_063142272.1  retroelement silencing factor 1 isoform X1

    11. XM_063286203.1 → XP_063142273.1  retroelement silencing factor 1 isoform X1

    12. XM_063286205.1 → XP_063142275.1  retroelement silencing factor 1 isoform X1

    13. XM_063286201.1 → XP_063142271.1  retroelement silencing factor 1 isoform X1

    14. XM_063286199.1 → XP_063142269.1  retroelement silencing factor 1 isoform X1

    15. XM_039108932.2 → XP_038964860.1  retroelement silencing factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZXS0, A6IN75
      Conserved Domains (1) summary
      pfam15395
      Location:447 → 1499
      DUF4617; Domain of unknown function (DUF4617)

    16. XM_039108933.2 → XP_038964861.1  retroelement silencing factor 1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZXS0, A6IN75
      Conserved Domains (1) summary
      pfam15395
      Location:447 → 1499
      DUF4617; Domain of unknown function (DUF4617)

    17. XM_008763457.4 → XP_008761679.1  retroelement silencing factor 1 isoform X2

      See identical proteins and their annotated locations for XP_008761679.1

      UniProtKB/TrEMBL
      A0A8I5ZXS0, A6IN75, E9PU57
      Related
      ENSRNOP00000052305.5
      Conserved Domains (1) summary
      pfam15395
      Location:446 → 1457
      DUF4617; Domain of unknown function (DUF4617)

    18. XM_039108936.2 → XP_038964864.1  retroelement silencing factor 1 isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZXS0, A6IN75
      Conserved Domains (1) summary
      pfam15395
      Location:447 → 1366
      DUF4617; Domain of unknown function (DUF4617)

    19. XM_039108937.2 → XP_038964865.1  retroelement silencing factor 1 isoform X4

      UniProtKB/TrEMBL
      A0A8I5ZXS0, A6IN75
      Conserved Domains (1) summary
      pfam15395
      Location:447 → 1301
      DUF4617; Domain of unknown function (DUF4617)

    20. XM_063286206.1 → XP_063142276.1  retroelement silencing factor 1 isoform X1

    21. XM_006237708.5 → XP_006237770.1  retroelement silencing factor 1 isoform X1

      See identical proteins and their annotated locations for XP_006237770.1

      UniProtKB/TrEMBL
      A0A8I5ZXS0, A6IN75
      Conserved Domains (1) summary
      pfam15395
      Location:447 → 1499
      DUF4617; Domain of unknown function (DUF4617)

    22. XM_063286212.1 → XP_063142282.1  retroelement silencing factor 1 isoform X5

    RNA

    1. XR_353788.5 RNA Sequence

    2. XR_010065651.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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