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

Gene ID: 67621, updated on 28-Apr-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 transcription, DNA-templated. Located in Golgi apparatus. Orthologous to human BEND5 (BEN domain containing 5). [provided by Alliance of Genome Resources, Apr 2022]
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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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 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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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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