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    Nin ninein [ Mus musculus (house mouse) ]

    Gene ID: 18080, updated on 9-Apr-2017
    Official Symbol
    Ninprovided by MGI
    Official Full Name
    nineinprovided by MGI
    Primary source
    MGI:MGI:105108
    See related
    Ensembl:ENSMUSG00000021068 Vega:OTTMUSG00000037170
    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
    AI385615; AU024711; mKIAA1565; 3110068G20Rik
    Orthologs
    Location:
    12; 12 C2
    Exon count:
    34
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 12 NC_000078.6 (70011435..70113830, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 12 NC_000078.5 (71112422..71212912, complement)

    Chromosome 12 - NC_000078.6Genomic Context describing neighboring genes Neighboring gene synaptotagmin binding, cytoplasmic RNA interacting protein pseudogene Neighboring gene salvador family WW domain containing 1 Neighboring gene protein phosphatase 2 (formerly 2A), regulatory subunit B (PR 52), alpha isoform pseudogene Neighboring gene abhydrolase domain containing 12B Neighboring gene liver glycogen phosphorylase

    • 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

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2) 
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Clone Names

    • MGC169413

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    GTP binding IEA
    Inferred from Electronic Annotation
    more info
     
    calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    kinase binding ISO
    Inferred from Sequence Orthology
    more info
     
    nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    centrosome localization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    centrosome-templated microtubule nucleation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    collateral sprouting IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    corpus callosum morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    corticospinal tract morphogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    microtubule anchoring at centrosome IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    microtubule anchoring at centrosome ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of axonogenesis IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    positive regulation of microtubule polymerization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    apical part of cell IDA
    Inferred from Direct Assay
    more info
    PubMed 
    axon IDA
    Inferred from Direct Assay
    more info
    PubMed 
    axonal growth cone IDA
    Inferred from Direct Assay
    more info
    PubMed 
    centriole IDA
    Inferred from Direct Assay
    more info
    PubMed 
    centriole ISO
    Inferred from Sequence Orthology
    more info
     
    centrosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    centrosome ISO
    Inferred from Sequence Orthology
    more info
     
    ciliary transition fiber IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
     
    dendrite IDA
    Inferred from Direct Assay
    more info
    PubMed 
    microtubule IEA
    Inferred from Electronic Annotation
    more info
     
    colocalizes_with microtubule minus-end IDA
    Inferred from Direct Assay
    more info
    PubMed 
    mitotic spindle pole IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleolus ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    pericentriolar material IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    pericentriolar material ISO
    Inferred from Sequence Orthology
    more info
     
    plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    spindle pole ISO
    Inferred from Sequence Orthology
    more info
    PubMed 

    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_001081453.1NP_001074922.1  ninein isoform 1

      See identical proteins and their annotated locations for NP_001074922.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) lacks an in-frame internal segment and the 3' terminal exon but includes an alternate 3' terminal sequence, compared to variant 2. The resulting isoform (1) is the longest; it lacks an internal segment and has a longer and distinct C-terminus, compared to isoform 2.
      Source sequence(s)
      AC116574, AK134860, AK147187, AY515727, CN535148
      Consensus CDS
      CCDS36468.1
      UniProtKB/TrEMBL
      E9Q4S3, Q674R4
      Related
      ENSMUSP00000082422.3, OTTMUSP00000053440, ENSMUST00000085314.9, OTTMUST00000095750
      Conserved Domains (5) summary
      COG1196
      Location:14242096
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      TIGR02168
      Location:8691735
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam09798
      Location:14741561
      LCD1; DNA damage checkpoint protein
      cl19219
      Location:475567
      DUF342; Protein of unknown function (DUF342)
      cl23887
      Location:625728
      DUF4349; Domain of unknown function (DUF4349)
    2. NM_001286079.2NP_001273008.1  ninein isoform 2

      See identical proteins and their annotated locations for NP_001273008.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an internal exon in the 5' UTR, compared to variant 2. Variants 2 and 3 encode the same isoform 2.
      Source sequence(s)
      AK141891, AK147187, BY739065, CJ089455, CN535148, U40342
      Consensus CDS
      CCDS36469.1
      UniProtKB/Swiss-Prot
      Q61043
      UniProtKB/TrEMBL
      Q3UR16
      Related
      ENSMUSP00000129648.1, ENSMUST00000169074.1
      Conserved Domains (5) summary
      TIGR02168
      Location:8691735
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam03528
      Location:15441929
      Rabaptin; Rabaptin
      pfam09798
      Location:14741561
      LCD1; DNA damage checkpoint protein
      cl19219
      Location:475567
      DUF342; Protein of unknown function (DUF342)
      cl23887
      Location:625728
      DUF4349; Domain of unknown function (DUF4349)
    3. NM_001286080.2NP_001273009.1  ninein isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an in-frame segment in the coding region, compared to variant 2. The resulting isoform (3) lacks an internal segment, compared to isoform 2.
      Source sequence(s)
      AK147187, AK162150, AY515727, BY739065, CN695964, U40342
      UniProtKB/Swiss-Prot
      Q61043
      UniProtKB/TrEMBL
      Q674R4
      Conserved Domains (4) summary
      TIGR02168
      Location:8691735
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam09798
      Location:14741561
      LCD1; DNA damage checkpoint protein
      cl19219
      Location:475567
      DUF342; Protein of unknown function (DUF342)
      cl23887
      Location:625728
      DUF4349; Domain of unknown function (DUF4349)
    4. NM_008697.4NP_032723.2  ninein isoform 2

      See identical proteins and their annotated locations for NP_032723.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) and variant 3 encode the same isoform (2).
      Source sequence(s)
      AK147187, AK162150, AY515727, BY739065, CN535148
      Consensus CDS
      CCDS36469.1
      UniProtKB/Swiss-Prot
      Q61043
      UniProtKB/TrEMBL
      Q674R4
      Related
      ENSMUSP00000021468.7, ENSMUST00000021468.13
      Conserved Domains (5) summary
      TIGR02168
      Location:8691735
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam03528
      Location:15441929
      Rabaptin; Rabaptin
      pfam09798
      Location:14741561
      LCD1; DNA damage checkpoint protein
      cl19219
      Location:475567
      DUF342; Protein of unknown function (DUF342)
      cl23887
      Location:625728
      DUF4349; Domain of unknown function (DUF4349)

    RNA

    1. NR_104397.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) has an additional exon in the 3' region, compared to variant 2. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 2, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK134860, AK147187, AK162150, AY515727, BY739065, CN535148
    2. NR_104398.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) has an alternate 5' terminal segment and an additional exon in the 3' region, compared to variant 2. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 2, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK134860, AY515727

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000078.6 Reference GRCm38.p4 C57BL/6J

      Range
      70011435..70113830 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006515530.2XP_006515593.1  ninein isoform X1

      See identical proteins and their annotated locations for XP_006515593.1

      Conserved Domains (4) summary
      TIGR02168
      Location:8691735
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam09798
      Location:14741561
      LCD1; DNA damage checkpoint protein
      cl19219
      Location:475567
      DUF342; Protein of unknown function (DUF342)
      cl23887
      Location:625728
      DUF4349; Domain of unknown function (DUF4349)
    2. XM_006515532.1XP_006515595.1  ninein isoform X3

      Conserved Domains (4) summary
      COG1196
      Location:8251403
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      TIGR02168
      Location:3541093
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      cl19219
      Location:475567
      DUF342; Protein of unknown function (DUF342)
      cl23887
      Location:625728
      DUF4349; Domain of unknown function (DUF4349)
    3. XM_011244009.1XP_011242311.1  ninein isoform X2

      See identical proteins and their annotated locations for XP_011242311.1

      UniProtKB/TrEMBL
      E9Q4S3
      Conserved Domains (5) summary
      COG1196
      Location:14242096
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      TIGR02168
      Location:8691735
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam09798
      Location:14741561
      LCD1; DNA damage checkpoint protein
      cl19219
      Location:475567
      DUF342; Protein of unknown function (DUF342)
      cl23887
      Location:625728
      DUF4349; Domain of unknown function (DUF4349)
    4. XM_006515529.1XP_006515592.1  ninein isoform X1

      See identical proteins and their annotated locations for XP_006515592.1

      Conserved Domains (4) summary
      TIGR02168
      Location:8691735
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam09798
      Location:14741561
      LCD1; DNA damage checkpoint protein
      cl19219
      Location:475567
      DUF342; Protein of unknown function (DUF342)
      cl23887
      Location:625728
      DUF4349; Domain of unknown function (DUF4349)
    5. XM_006515527.1XP_006515590.1  ninein isoform X1

      See identical proteins and their annotated locations for XP_006515590.1

      Conserved Domains (4) summary
      TIGR02168
      Location:8691735
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam09798
      Location:14741561
      LCD1; DNA damage checkpoint protein
      cl19219
      Location:475567
      DUF342; Protein of unknown function (DUF342)
      cl23887
      Location:625728
      DUF4349; Domain of unknown function (DUF4349)
    6. XM_006515528.2XP_006515591.1  ninein isoform X1

      See identical proteins and their annotated locations for XP_006515591.1

      Conserved Domains (4) summary
      TIGR02168
      Location:8691735
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam09798
      Location:14741561
      LCD1; DNA damage checkpoint protein
      cl19219
      Location:475567
      DUF342; Protein of unknown function (DUF342)
      cl23887
      Location:625728
      DUF4349; Domain of unknown function (DUF4349)

    RNA

    1. XR_381484.2 RNA Sequence

    2. XR_001780420.1 RNA Sequence

    3. XR_872709.1 RNA Sequence

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