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Zbed5 zinc finger BED-type containing 5 [ Mus musculus (house mouse) ]

Gene ID: 71970, updated on 21-Apr-2024

Summary

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Official Symbol
Zbed5provided by MGI
Official Full Name
zinc finger BED-type containing 5provided by MGI
Primary source
MGI:MGI:1919220
See related
Ensembl:ENSMUSG00000034173 AllianceGenome:MGI:1919220
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
Scand3; Chchd2l; 2410018M08Rik
Summary
Located in mitochondrion. Orthologous to several human genes including ZBED5 (zinc finger BED-type containing 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in adrenal adult (RPKM 344.6), duodenum adult (RPKM 276.2) and 28 other tissues See more
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Genomic context

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Location:
5 G1.3; 5 68.26 cM
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (129924564..129937350)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (129895723..129908509)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene sulfatase modifying factor 2 Neighboring gene phosphorylase kinase gamma 1 Neighboring gene STARR-positive B cell enhancer ABC_E125 Neighboring gene coiled-coil-helix-coiled-coil-helix domain containing 2 Neighboring gene STARR-positive B cell enhancer ABC_E2766 Neighboring gene STARR-seq mESC enhancer starr_14464 Neighboring gene nuclear protein transcriptional regulator 2 Neighboring gene STARR-positive B cell enhancer ABC_E1308 Neighboring gene vitamin K epoxide reductase complex, subunit 1-like 1 Neighboring gene STARR-seq mESC enhancer starr_14467 Neighboring gene STARR-seq mESC enhancer starr_14468 Neighboring gene glucuronidase, beta

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. New TFII-I family target genes involved in embryonic development. Makeyev AV, et al. Biochem Biophys Res Commun, 2009 Sep 4. PMID 19527686, Free PMC Article
  2. Mapping the NPHP-JBTS-MKS protein network reveals ciliopathy disease genes and pathways. Sang L, et al. Cell, 2011 May 13. PMID 21565611, Free PMC Article
  3. High-throughput discovery of novel developmental phenotypes. Dickinson ME, et al. Nature, 2016 Sep 22. PMID 27626380, Free PMC Article
  4. A mitochondrial protein compendium elucidates complex I disease biology. Pagliarini DJ, et al. Cell, 2008 Jul 11. PMID 18614015, Free PMC Article
  5. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article

See all (17) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Scand3 is down-regulated during mouse embryonic stem cell differentiation.
    Title: New TFII-I family target genes involved in embryonic development.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2) 
  • Endonuclease-mediated (1) 

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
Component Evidence Code Pubs
located_in mitochondrion HDA PubMed 

General protein information

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Preferred Names
SCAN domain containing 3
Names
ZSCAN domain containing 3
coiled-coil-helix-coiled-coil-helix domain containing 2-like

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_001359408.1 → NP_001346337.1  SCAN domain containing 3 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1.
    Source sequence(s)
    AC164071
    Conserved Domains (3) summary
    pfam05699
    Location:650 → 715
    Dimer_Tnp_hAT; hAT family C-terminal dimerization region
    pfam06747
    Location:95 → 126
    CHCH; CHCH domain
    pfam14291
    Location:291 → 386
    DUF4371; Domain of unknown function (DUF4371)

  2. NM_183088.2 → NP_898911.2  SCAN domain containing 3 isoform 1

    See identical proteins and their annotated locations for NP_898911.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AC164071, AK010551
    Consensus CDS
    CCDS39292.1
    UniProtKB/TrEMBL
    B2RPU8
    Related
    ENSMUSP00000044533.8, ENSMUST00000041466.14
    Conserved Domains (3) summary
    pfam05699
    Location:671 → 736
    Dimer_Tnp_hAT; hAT family C-terminal dimerization region
    pfam06747
    Location:116 → 147
    CHCH; CHCH domain
    pfam14291
    Location:335 → 407
    DUF4371; Domain of unknown function (DUF4371)

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_000071.7 Reference GRCm39 C57BL/6J

    Range
    129924564..129937350
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017321106.2 → XP_017176595.1  SCAN domain containing 3 isoform X2

    Conserved Domains (1) summary
    pfam06747
    Location:95 → 126
    CHCH; CHCH domain

  2. XM_017321105.3 → XP_017176594.1  SCAN domain containing 3 isoform X1

    Conserved Domains (3) summary
    pfam05699
    Location:650 → 715
    Dimer_Tnp_hAT; hAT family C-terminal dimerization region
    pfam06747
    Location:95 → 126
    CHCH; CHCH domain
    pfam14291
    Location:291 → 386
    DUF4371; Domain of unknown function (DUF4371)

RNA

  1. XR_004942567.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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