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    Ccdc30 coiled-coil domain containing 30 [ Mus musculus (house mouse) ]

    Gene ID: 73332, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Ccdc30provided by MGI
    Official Full Name
    coiled-coil domain containing 30provided by MGI
    Primary source
    MGI:MGI:1920582
    See related
    Ensembl:ENSMUSG00000028637 AllianceGenome:MGI:1920582
    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
    1700001O02Rik; 1700041C02Rik; 1700111D19Rik; 4930445I03Rik
    Summary
    Is expressed in lateral ventricle choroid plexus and pancreas. Orthologous to human CCDC30 (coiled-coil domain containing 30). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in testis adult (RPKM 19.3), CNS E18 (RPKM 1.6) and 4 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Ccdc30 in Genome Data Viewer
    Location:
    4 D2.1; 4 55.35 cM
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (119179665..119272718, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (119322468..119415521, complement)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E1652 Neighboring gene Y box protein 1 Neighboring gene peptidyl prolyl isomerase H Neighboring gene STARR-positive B cell enhancer ABC_E10252 Neighboring gene lactate dehydrogenase A, pseudogene 2 Neighboring gene STARR-seq mESC enhancer starr_11233 Neighboring gene zinc finger, MYND domain containing 12 Neighboring gene phosphopantothenoylcysteine synthetase

    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 RecA-mediated exon profiling method. Hasegawa Y, et al. Nucleic Acids Res, 2006 Aug 8. PMID 16896013, Free PMC Article
    2. New candidate genes identified for controlling mouse gonadal sex determination and the early stages of granulosa and Sertoli cell differentiation. Bouma GJ, et al. Biol Reprod, 2010 Feb. PMID 19864314, Free PMC Article
    3. A comparison of whole-genome shotgun-derived mouse chromosome 16 and the human genome. Mural RJ, et al. Science, 2002 May 31. PMID 12040188
    4. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article
    5. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, 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) 

    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
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    coiled-coil domain-containing protein 30
    Names
    prefoldin subunit 6-like protein

    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_001270435.2 → NP_001257364.1  coiled-coil domain-containing protein 30 isoform b

      See identical proteins and their annotated locations for NP_001257364.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the central coding region, compared to variant 1, resulting in an isoform (b) that is shorter than isoform a.
      Source sequence(s)
      BX470216
      Consensus CDS
      CCDS89822.1
      UniProtKB/TrEMBL
      A0A589M9T4
      Related
      ENSMUSP00000158680.2, ENSMUST00000238293.2
      Conserved Domains (1) summary
      pfam15742
      Location:165 → 542
      DUF4686; Domain of unknown function (DUF4686)

    2. NM_001270446.2 → NP_001257375.1  coiled-coil domain-containing protein 30 isoform e

      See identical proteins and their annotated locations for NP_001257375.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) lacks several 5' exons, and uses both an alternate internal promoter and a downstream in-frame start codon, compared to variant 1. The encoded isoform (e) is shorter at the N-terminus, compared to isoform a. Both variants 5 and 6 encode isoform e.
      Source sequence(s)
      BX470216
      Consensus CDS
      CCDS89819.1
      UniProtKB/TrEMBL
      A0A571BEH3
      Related
      ENSMUSP00000158729.2, ENSMUST00000154606.9
      Conserved Domains (1) summary
      pfam15742
      Location:1 → 65
      DUF4686; Domain of unknown function (DUF4686)

    3. NM_028506.2 → NP_082782.1  coiled-coil domain-containing protein 30 isoform e

      See identical proteins and their annotated locations for NP_082782.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) lacks several 5' exons, and uses both an alternate internal promoter and a downstream in-frame start codon, compared to variant 1. The encoded isoform (e) is shorter at the N-terminus, compared to isoform a. Both variants 5 and 6 encode isoform e.
      Source sequence(s)
      BX470216
      Consensus CDS
      CCDS89819.1
      UniProtKB/TrEMBL
      A0A571BEH3
      Related
      ENSMUSP00000158653.2, ENSMUST00000238723.2
      Conserved Domains (1) summary
      pfam15742
      Location:1 → 65
      DUF4686; Domain of unknown function (DUF4686)

    4. NM_028698.2 → NP_082974.1  coiled-coil domain-containing protein 30 isoform c

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate internal promoter and has entirely different exon structure, compared to variant 1, but it shares exon structure with both variants 4 and 5. The encoded isoform (c) is entirely distinct and is shorter than isoform a.
      Source sequence(s)
      BX470216
      Consensus CDS
      CCDS57292.1
      UniProtKB/TrEMBL
      A8WHU1, Q9CVP0
      Related
      ENSMUSP00000081332.4, ENSMUST00000084307.5
      Conserved Domains (1) summary
      pfam11744
      Location:13 → 147
      ALMT; Aluminium activated malate transporter

    5. NM_028857.2 → NP_083133.1  coiled-coil domain-containing protein 30 isoform d

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) uses an alternate internal promoter and has entirely different exon structure, compared to variant 1, but it shares exon structure with both variants 3 and 5. The encoded isoform (d) is entirely distinct and is shorter than isoform a.
      Source sequence(s)
      BX470216
      Consensus CDS
      CCDS89820.1
      UniProtKB/TrEMBL
      A0A571BGB9, Q9CVP0
      Related
      ENSMUSP00000158782.2, ENSMUST00000127149.8

    6. NM_029286.3 → NP_083562.1  coiled-coil domain-containing protein 30 isoform a

      See identical proteins and their annotated locations for NP_083562.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
      Source sequence(s)
      BX470216
      Consensus CDS
      CCDS38861.1
      UniProtKB/Swiss-Prot
      Q14CD0, Q3TR07, Q8BVF4, Q9D9N6
      UniProtKB/TrEMBL
      A0A589M9T4
      Related
      ENSMUSP00000158825.2, ENSMUST00000238759.2
      Conserved Domains (1) summary
      pfam15742
      Location:170 → 547
      DUF4686; Domain of unknown function (DUF4686)

    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
      119179665..119272718 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030253833.1 → XP_030109693.1  coiled-coil domain-containing protein 30 isoform X3

      UniProtKB/TrEMBL
      A0A571BD61, A0A571BEJ8
      Related
      ENSMUSP00000158783.2, ENSMUST00000238697.2
      Conserved Domains (2) summary
      pfam11744
      Location:13 → 97
      ALMT; Aluminium activated malate transporter
      pfam15742
      Location:227 → 604
      DUF4686; Domain of unknown function (DUF4686)

    2. XM_036164484.1 → XP_036020377.1  coiled-coil domain-containing protein 30 isoform X1

      Conserved Domains (2) summary
      COG1196
      Location:134 → 481
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam15742
      Location:339 → 716
      DUF4686; Domain of unknown function (DUF4686)

    3. XM_036164485.1 → XP_036020378.1  coiled-coil domain-containing protein 30 isoform X2

      Conserved Domains (2) summary
      COG1196
      Location:134 → 481
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam15742
      Location:339 → 716
      DUF4686; Domain of unknown function (DUF4686)

    4. XM_036164486.1 → XP_036020379.1  coiled-coil domain-containing protein 30 isoform X4

      Conserved Domains (1) summary
      pfam15742
      Location:339 → 568
      DUF4686; Domain of unknown function (DUF4686)

    5. XM_036164488.1 → XP_036020381.1  coiled-coil domain-containing protein 30 isoform X6

      Conserved Domains (1) summary
      pfam15742
      Location:339 → 519
      DUF4686; Domain of unknown function (DUF4686)

    6. XM_036164487.1 → XP_036020380.1  coiled-coil domain-containing protein 30 isoform X5

      Conserved Domains (2) summary
      COG1196
      Location:134 → 518
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam15742
      Location:339 → 521
      DUF4686; Domain of unknown function (DUF4686)

    RNA

    1. XR_004941995.1 RNA Sequence

    2. XR_004941994.1 RNA Sequence

    3. XR_004941993.1 RNA Sequence

    4. XR_004941992.1 RNA Sequence

    5. XR_003955029.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BVF4.1 GenPept UniProtKB/Swiss-Prot:Q8BVF4

    Gene LinkOut

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