U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Zbtb40 zinc finger and BTB domain containing 40 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362635, updated on 3-Apr-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Zbtb40provided by RGD
    Official Full Name
    zinc finger and BTB domain containing 40provided by RGD
    Primary source
    RGD:1309866
    See related
    Ensembl:ENSRNOG00000022039 AllianceGenome:RGD:1309866
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1309866
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in cellular response to DNA damage stimulus and regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Orthologous to human ZBTB40 (zinc finger and BTB domain containing 40). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Thymus (RPKM 49.0), Adrenal (RPKM 39.1) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    Location:
    5q36
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (154499952..154569390, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (149216496..149283746, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (155343823..155411086, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134487087 Neighboring gene Eph receptor A8 Neighboring gene small nucleolar RNA SNORA17 Neighboring gene uncharacterized LOC102552931 Neighboring gene Wnt family member 4

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. ATM and ATR substrate analysis reveals extensive protein networks responsive to DNA damage. Matsuoka S, et al. Science, 2007 May 25. PMID 17525332
    2. Gene and alternative splicing annotation with AIR. Florea L, et al. Genome Res, 2005 Jan. PMID 15632090, Free PMC Article
    3. Large-scale characterization of HeLa cell nuclear phosphoproteins. Beausoleil SA, et al. Proc Natl Acad Sci U S A, 2004 Aug 17. PMID 15302935, 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

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA damage response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in DNA damage response ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    zinc finger and BTB domain-containing protein 40

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001191871.1 → NP_001178800.1  zinc finger and BTB domain-containing protein 40

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      D4A365
      Related
      ENSRNOP00000035665.7, ENSRNOT00000033670.7
      Conserved Domains (5) summary
      COG5048
      Location:869 → 1122
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:853 → 873
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:968 → 986
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cd18225
      Location:1 → 116
      BTB_POZ_ZBTB40; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 40 (ZBTB40)
      pfam05605
      Location:1120 → 1174
      zf-Di19; Drought induced 19 protein (Di19), zinc-binding

    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_086023.1 Reference GRCr8

      Range
      154499952..154569390 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039110414.2 → XP_038966342.1  zinc finger and BTB domain-containing protein 40 isoform X1

      UniProtKB/TrEMBL
      D4A365
      Conserved Domains (5) summary
      COG5048
      Location:869 → 1122
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:853 → 873
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:968 → 986
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cd18225
      Location:1 → 116
      BTB_POZ_ZBTB40; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 40 (ZBTB40)
      pfam05605
      Location:1120 → 1174
      zf-Di19; Drought induced 19 protein (Di19), zinc-binding

    2. XM_039110417.2 → XP_038966345.1  zinc finger and BTB domain-containing protein 40 isoform X1

      UniProtKB/TrEMBL
      D4A365
      Conserved Domains (5) summary
      COG5048
      Location:869 → 1122
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:853 → 873
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:968 → 986
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cd18225
      Location:1 → 116
      BTB_POZ_ZBTB40; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 40 (ZBTB40)
      pfam05605
      Location:1120 → 1174
      zf-Di19; Drought induced 19 protein (Di19), zinc-binding

    3. XM_006239232.5 → XP_006239294.1  zinc finger and BTB domain-containing protein 40 isoform X2

      UniProtKB/TrEMBL
      D4A365
      Conserved Domains (7) summary
      smart00225
      Location:25 → 116
      BTB; Broad-Complex, Tramtrack and Bric a brac
      COG5048
      Location:869 → 1121
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:853 → 873
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:967 → 985
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:993 → 1015
      zf-C2H2; Zinc finger, C2H2 type
      pfam00651
      Location:19 → 113
      BTB; BTB/POZ domain
      pfam13465
      Location:922 → 947
      zf-H2C2_2; Zinc-finger double domain

    4. XM_039110411.2 → XP_038966339.1  zinc finger and BTB domain-containing protein 40 isoform X1

      UniProtKB/TrEMBL
      D4A365
      Conserved Domains (5) summary
      COG5048
      Location:869 → 1122
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:853 → 873
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:968 → 986
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cd18225
      Location:1 → 116
      BTB_POZ_ZBTB40; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 40 (ZBTB40)
      pfam05605
      Location:1120 → 1174
      zf-Di19; Drought induced 19 protein (Di19), zinc-binding

    5. XM_039110412.2 → XP_038966340.1  zinc finger and BTB domain-containing protein 40 isoform X1

      UniProtKB/TrEMBL
      D4A365
      Conserved Domains (5) summary
      COG5048
      Location:869 → 1122
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:853 → 873
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:968 → 986
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cd18225
      Location:1 → 116
      BTB_POZ_ZBTB40; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 40 (ZBTB40)
      pfam05605
      Location:1120 → 1174
      zf-Di19; Drought induced 19 protein (Di19), zinc-binding

    6. XM_039110413.2 → XP_038966341.1  zinc finger and BTB domain-containing protein 40 isoform X1

      UniProtKB/TrEMBL
      D4A365
      Conserved Domains (5) summary
      COG5048
      Location:869 → 1122
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:853 → 873
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:968 → 986
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cd18225
      Location:1 → 116
      BTB_POZ_ZBTB40; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 40 (ZBTB40)
      pfam05605
      Location:1120 → 1174
      zf-Di19; Drought induced 19 protein (Di19), zinc-binding

    7. XM_039110416.2 → XP_038966344.1  zinc finger and BTB domain-containing protein 40 isoform X1

      UniProtKB/TrEMBL
      D4A365
      Conserved Domains (5) summary
      COG5048
      Location:869 → 1122
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:853 → 873
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:968 → 986
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cd18225
      Location:1 → 116
      BTB_POZ_ZBTB40; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 40 (ZBTB40)
      pfam05605
      Location:1120 → 1174
      zf-Di19; Drought induced 19 protein (Di19), zinc-binding

    8. XM_063288071.1 → XP_063144141.1  zinc finger and BTB domain-containing protein 40 isoform X1

      UniProtKB/TrEMBL
      D4A365

    9. XM_063288072.1 → XP_063144142.1  zinc finger and BTB domain-containing protein 40 isoform X1

      UniProtKB/TrEMBL
      D4A365

    10. XM_039110420.2 → XP_038966348.1  zinc finger and BTB domain-containing protein 40 isoform X7

      Conserved Domains (4) summary
      COG5048
      Location:494 → 698
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:478 → 498
      ZF_C2H2; C2H2 Zn finger [structural motif]
      sd00019
      Location:593 → 611
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam05605
      Location:745 → 799
      zf-Di19; Drought induced 19 protein (Di19), zinc-binding

    11. XM_063288073.1 → XP_063144143.1  zinc finger and BTB domain-containing protein 40 isoform X3

    12. XM_063288074.1 → XP_063144144.1  zinc finger and BTB domain-containing protein 40 isoform X4

    13. XM_063288075.1 → XP_063144145.1  zinc finger and BTB domain-containing protein 40 isoform X5

    14. XM_039110419.2 → XP_038966347.1  zinc finger and BTB domain-containing protein 40 isoform X6

      Conserved Domains (3) summary
      COG5048
      Location:756 → 957
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:853 → 873
      ZF_C2H2; C2H2 Zn finger [structural motif]
      cd18225
      Location:1 → 116
      BTB_POZ_ZBTB40; BTB (Broad-Complex, Tramtrack and Bric a brac)/POZ (poxvirus and zinc finger) domain found in zinc finger and BTB domain-containing protein 40 (ZBTB40)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous