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    Dennd1b DENN domain containing 1B [ Mus musculus (house mouse) ]

    Gene ID: 329260, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Dennd1bprovided by MGI
    Official Full Name
    DENN domain containing 1Bprovided by MGI
    Primary source
    MGI:MGI:2447812
    See related
    Ensembl:ENSMUSG00000056268 AllianceGenome:MGI:2447812
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    4632404N19Rik; 4930467M19Rik; 6820401H01Rik; F730008N07Rik
    Summary
    Enables guanyl-nucleotide exchange factor activity and small GTPase binding activity. Involved in endocytic recycling; positive regulation of GTPase activity; and positive regulation of immune response. Predicted to be located in clathrin-coated vesicle. Predicted to be active in cytosol and nuclear speck. Orthologous to human DENND1B (DENN domain containing 1B). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in placenta adult (RPKM 2.2), thymus adult (RPKM 1.6) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Dennd1b in Genome Data Viewer
    Location:
    1 E4; 1 60.84 cM
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (138891447..139103781)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (138963709..139176043)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 2310009B15 gene Neighboring gene STARR-positive B cell enhancer mm9_chr1:140753241-140753541 Neighboring gene STARR-seq mESC enhancer starr_02468 Neighboring gene RIKEN cDNA 1700019P21 gene Neighboring gene STARR-seq mESC enhancer starr_02470 Neighboring gene STARR-positive B cell enhancer ABC_E4352 Neighboring gene RIKEN cDNA 4930596I21 gene Neighboring gene STARR-positive B cell enhancer mm9_chr1:140872594-140872895 Neighboring gene glutathione S-transferase, mu 5 pseudogene Neighboring gene ribosomal protein S2 pseudogene Neighboring gene STARR-positive B cell enhancer mm9_chr1:140958665-140958966 Neighboring gene STARR-seq mESC enhancer starr_02473 Neighboring gene STARR-positive B cell enhancer mm9_chr1:141053030-141053331 Neighboring gene predicted gene 16304 Neighboring gene predicted gene, 57793 Neighboring gene STARR-seq mESC enhancer starr_02474 Neighboring gene predicted gene, 41960 Neighboring gene crumbs family member 1, photoreceptor morphogenesis associated Neighboring gene STARR-seq mESC enhancer starr_02475 Neighboring gene STARR-positive B cell enhancer ABC_E3309 Neighboring gene RIKEN cDNA 4933436E23 gene Neighboring gene STARR-seq mESC enhancer starr_02477 Neighboring gene predicted gene, 34816

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. A novel DENND1B-localized structure found at the basal side of adherent cells. Park EW, et al. Histochem Cell Biol, 2021 Jan. PMID 33135087
    2. Regulation of T Cell Receptor Signaling by DENND1B in TH2 Cells and Allergic Disease. Yang CW, et al. Cell, 2016 Jan 14. PMID 26774822
    3. Extensive variation between inbred mouse strains due to endogenous L1 retrotransposition. Akagi K, et al. Genome Res, 2008 Jun. PMID 18381897, Free PMC Article
    4. Mouse screen reveals multiple new genes underlying mouse and human hearing loss. Ingham NJ, et al. PLoS Biol, 2019 Apr. PMID 30973865, Free PMC Article
    5. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (3)  1 citation

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC51484

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables guanyl-nucleotide exchange factor activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables guanyl-nucleotide exchange factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables guanyl-nucleotide exchange factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables phosphatidylinositol phosphate binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables small GTPase binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in T cell receptor signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in T cell receptor signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in T cell receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endocytic recycling IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in endocytic recycling IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in endocytosis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of GTPase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of T-helper 2 cell cytokine production IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of T-helper 2 cell cytokine production ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of immune response IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in clathrin-coated vesicle IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in intracellular membrane-bounded organelle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nuclear speck IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nuclear speck IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nuclear speck ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    DENN domain-containing protein 1B
    Names
    ASL1/9AS1-1 fusion
    DENN/MADD domain containing 1B
    connecdenn 2

    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_001166501.1 → NP_001159973.1  DENN domain-containing protein 1B isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC117623, AC138741
      Consensus CDS
      CCDS48384.1
      UniProtKB/Swiss-Prot
      B2RUR7, E9Q246, Q3U1T9, Q8CG96, Q9D5B9
      Related
      ENSMUSP00000127580.2, ENSMUST00000168527.8
      Conserved Domains (3) summary
      smart00801
      Location:303 → 368
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:92 → 271
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:9 → 89
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins

    2. NM_181347.3 → NP_851992.1  DENN domain-containing protein 1B isoform 2

      See identical proteins and their annotated locations for NP_851992.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) represents use of an alternate promoter and 5' UTR and uses a downstream start codon, compared to variant 1. The resulting isoform (2) has a shorter N-terminus, compared to isoform 1.
      Source sequence(s)
      AC138741, AK155727
      Consensus CDS
      CCDS35728.1
      UniProtKB/Swiss-Prot
      Q3U1T9
      Related
      ENSMUSP00000092082.4, ENSMUST00000094505.6
      Conserved Domains (2) summary
      smart00801
      Location:228 → 293
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:17 → 196
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000067.7 Reference GRCm39 C57BL/6J

      Range
      138891447..139103781
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006529716.5 → XP_006529779.1  DENN domain-containing protein 1B isoform X1

      Conserved Domains (3) summary
      smart00801
      Location:323 → 388
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:92 → 291
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:9 → 89
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins

    2. XM_036165904.1 → XP_036021797.1  DENN domain-containing protein 1B isoform X5

      Conserved Domains (3) summary
      smart00801
      Location:240 → 305
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:92 → 227
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:9 → 89
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins

    3. XM_036165909.1 → XP_036021802.1  DENN domain-containing protein 1B isoform X7

      Conserved Domains (3) summary
      smart00801
      Location:220 → 285
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:92 → 207
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:9 → 89
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins

    4. XM_036165910.1 → XP_036021803.1  DENN domain-containing protein 1B isoform X8

      Conserved Domains (3) summary
      smart00801
      Location:323 → 388
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:92 → 291
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:9 → 89
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins

    5. XM_036165911.1 → XP_036021804.1  DENN domain-containing protein 1B isoform X9

      Conserved Domains (3) summary
      smart00801
      Location:303 → 368
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:92 → 271
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:9 → 89
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins

    6. XM_036165912.1 → XP_036021805.1  DENN domain-containing protein 1B isoform X10

      UniProtKB/TrEMBL
      C6EQJ8
      Conserved Domains (1) summary
      pfam03455
      Location:1 → 38
      dDENN; dDENN domain

    7. XM_006529719.4 → XP_006529782.1  DENN domain-containing protein 1B isoform X6

      Conserved Domains (2) summary
      smart00801
      Location:225 → 290
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:21 → 193
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN

    8. XM_006529718.4 → XP_006529781.1  DENN domain-containing protein 1B isoform X4

      Conserved Domains (2) summary
      smart00801
      Location:245 → 310
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:21 → 213
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN

    9. XM_006529717.4 → XP_006529780.1  DENN domain-containing protein 1B isoform X2

      Conserved Domains (3) summary
      smart00801
      Location:287 → 352
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:56 → 255
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:7 → 53
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins

    10. XM_030255029.2 → XP_030110889.1  DENN domain-containing protein 1B isoform X3

      Conserved Domains (3) summary
      smart00801
      Location:267 → 332
      dDENN; Domain always found downstream of DENN domain, found in a variety of signalling proteins
      smart00799
      Location:56 → 235
      DENN; Domain found in a variety of signalling proteins, always encircled by uDENN and dDENN
      smart00800
      Location:7 → 53
      uDENN; Domain always found upstream of DENN domain, found in a variety of signalling proteins

    11. XM_036165915.1 → XP_036021808.1  DENN domain-containing protein 1B isoform X10

      UniProtKB/TrEMBL
      C6EQJ8
      Conserved Domains (1) summary
      pfam03455
      Location:1 → 38
      dDENN; dDENN domain

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_183217.2: Suppressed sequence

      Description
      NM_183217.2: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3U1T9.3 GenPept UniProtKB/Swiss-Prot:Q3U1T9

    Gene LinkOut

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

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