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    Bend5 BEN domain containing 5 [ Mus musculus (house mouse) ]

    Gene ID: 67621, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Bend5provided by MGI
    Official Full Name
    BEN domain containing 5provided by MGI
    Primary source
    MGI:MGI:1914871
    See related
    Ensembl:ENSMUSG00000028545 AllianceGenome:MGI:1914871
    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
    2310026E23Rik
    Summary
    Predicted to enable DNA binding activity. Predicted to be involved in negative regulation of DNA-templated transcription. Located in Golgi apparatus. Orthologous to human BEND5 (BEN domain containing 5). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in CNS E14 (RPKM 7.7), whole brain E14.5 (RPKM 7.2) and 24 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Bend5 in Genome Data Viewer
    Location:
    4 D1; 4 51.53 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (111271993..111317495)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (111413794..111460298)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene ATP/GTP binding protein-like 4 Neighboring gene STARR-positive B cell enhancer ABC_E2704 Neighboring gene STARR-seq mESC enhancer starr_11088 Neighboring gene microfibrillar-associated protein 1B pseudogene Neighboring gene crumbs homolog 1 pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E1278 Neighboring gene STARR-positive B cell enhancer ABC_E11250 Neighboring gene STARR-seq mESC enhancer starr_11089 Neighboring gene STARR-seq mESC enhancer starr_11090 Neighboring gene STARR-seq mESC enhancer starr_11091 Neighboring gene STARR-seq mESC enhancer starr_11092 Neighboring gene STARR-positive B cell enhancer ABC_E4646 Neighboring gene predicted gene, 33192 Neighboring gene spermatogenesis associated 6 Neighboring gene predicted gene 12961

    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. Integrative characterization of germ cell-specific genes from mouse spermatocyte UniGene library. Choi E, et al. BMC Genomics, 2007 Jul 28. PMID 17662146, Free PMC Article
    2. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
    4. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    5. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636

    See all (12) 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 (2) 
    • Targeted (1) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    BEN domain-containing protein 5

    NCBI Reference Sequences (RefSeq)

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    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_026279.3 → NP_080555.1  BEN domain-containing protein 5

      See identical proteins and their annotated locations for NP_080555.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the functional protein.
      Source sequence(s)
      AK075885, AL669965
      Consensus CDS
      CCDS18472.1
      UniProtKB/Swiss-Prot
      Q3TJI2, Q80V74, Q80WB6, Q8C6D4, Q9CRW0
      Related
      ENSMUSP00000030274.7, ENSMUST00000030274.7
      Conserved Domains (2) summary
      TIGR02168
      Location:70 → 277
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam10523
      Location:323 → 397
      BEN; BEN domain

    RNA

    1. NR_033793.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AL627347, AL669965

    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_000070.7 Reference GRCm39 C57BL/6J

      Range
      111271993..111317495
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006503323.4 → XP_006503386.1  BEN domain-containing protein 5 isoform X1

      See identical proteins and their annotated locations for XP_006503386.1

    2. XM_011240594.4 → XP_011238896.1  BEN domain-containing protein 5 isoform X2

      See identical proteins and their annotated locations for XP_011238896.1

      UniProtKB/Swiss-Prot
      Q8C6D4
      Conserved Domains (1) summary
      pfam10523
      Location:154 → 228
      BEN; BEN domain

    3. XM_017320366.3 → XP_017175855.1  BEN domain-containing protein 5 isoform X2

      UniProtKB/Swiss-Prot
      Q8C6D4
      Conserved Domains (1) summary
      pfam10523
      Location:154 → 228
      BEN; BEN domain

    RNA

    1. XR_376343.4 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8C6D4.1 GenPept UniProtKB/Swiss-Prot:Q8C6D4

    Gene LinkOut

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

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