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Spmip6 sperm microtubule inner protein 6 [ Mus musculus (house mouse) ]

Gene ID: 73721, updated on 5-Mar-2024

Summary

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Official Symbol
Spmip6provided by MGI
Official Full Name
sperm microtubule inner protein 6provided by MGI
Primary source
MGI:MGI:1920971
See related
Ensembl:ENSMUSG00000028441 AllianceGenome:MGI:1920971
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
Cbe1; Smrp1; 1110017D15Rik
Summary
Enables alpha-tubulin binding activity. Acts upstream of or within cellular protein-containing complex assembly. Located in manchette and perinuclear region of cytoplasm. Is expressed in several structures, including sensory organ; skeleton; tarsus; testis; and thymus. Orthologous to human C9orf24 (chromosome 9 open reading frame 24). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Restricted expression toward testis adult (RPKM 148.4) See more
Orthologs
human all
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Genomic context

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See Spmip6 in Genome Data Viewer
Location:
4 A5; 4 21.7 cM
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (41505005..41517333, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (41505005..41517366, complement)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E277 Neighboring gene nudix hydrolase 2 Neighboring gene STARR-seq mESC enhancer starr_10034 Neighboring gene myogenesis regulating glycosidase (putative) Neighboring gene family with sequence similarity 219, member A, opposite strand Neighboring gene family with sequence similarity 219, member A Neighboring gene predicted gene 12404

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. CBE1 Is a Manchette- and Mitochondria-Associated Protein With a Potential Role in Somatic Cell Proliferation. Pleuger C, et al. Endocrinology, 2019 Nov 1. PMID 31504408
  2. Isolation and characterization of the spermatid-specific Smrp1 gene encoding a novel manchette protein. Matsuoka Y, et al. Mol Reprod Dev, 2008 Jun. PMID 18163442
  3. Characterization of ciliated bronchial epithelium 1, a ciliated cell-associated gene induced during mucociliary differentiation. Yoshisue H, et al. Am J Respir Cell Mol Biol, 2004 Nov. PMID 15242845
  4. Chronological expression of Ciliated Bronchial Epithelium 1 during pulmonary development. Haitchi HM, et al. Eur Respir J, 2009 May. PMID 19213785
  5. Genome engineering uncovers 54 evolutionarily conserved and testis-enriched genes that are not required for male fertility in mice. Miyata H, et al. Proc Natl Acad Sci U S A, 2016 Jul 12. PMID 27357688, Free PMC Article

See all (19) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. localized to the mitochondria and the contractile ring of dividing inner medullary collecting duct cells; associated with intramanchette transport and midpiece formation of the sperm tail; long isoforms not essential for male fertility
    Title: CBE1 Is a Manchette- and Mitochondria-Associated Protein With a Potential Role in Somatic Cell Proliferation.
  2. Chronological regulation of CBE1/Cbe1 expression during pulmonary differentiation suggests involvement in ciliogenesis, with an additional role during early lung development.
    Title: Chronological expression of Ciliated Bronchial Epithelium 1 during pulmonary development.
  3. 1110017D15Rik is most abundantly expressed in tissues rich in highly ciliated cells, such as olfactory sensory neurons, and is predicted to be important to cilia.
    Title: Tissue expression patterns identify mouse cilia genes.
  4. SMRP1 was localized to the cytoplasm of step 9-12 elongated spermatids. The protein appeared in a cap formation that covered the caudal sides of the elongated nuclei.
    Title: Isolation and characterization of the spermatid-specific Smrp1 gene encoding a novel manchette protein.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables alpha-tubulin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables alpha-tubulin binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within protein-containing complex assembly IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within spermatogenesis IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in axonemal A tubule inner sheath IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cell projection IEA
Inferred from Electronic Annotation
more info
  
located_in cilium IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoskeleton IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol ISO
Inferred from Sequence Orthology
more info
  
is_active_in manchette IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in manchette IDA
Inferred from Direct Assay
more info
 PubMed 
located_in mitochondrion IDA
Inferred from Direct Assay
more info
 PubMed 
located_in motile cilium IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
is_active_in perinuclear region of cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in perinuclear region of cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in sperm midpiece IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
sperm microtubule inner protein 6
Names
ciliated bronchial epithelial protein 1
ciliated bronchial epithelium 1
likely ortholog of H. sapiens chromosome 9 open reading frame 24 (C9orf24)
spermatid-specific manchette-related protein 1
testes development-related NYD-SP22
testis development protein NYD-SP22

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_001048005.1 → NP_001041470.1  sperm microtubule inner protein 6 isoform 1

    See identical proteins and their annotated locations for NP_001041470.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes isoform 1.
    Source sequence(s)
    AB231294, BU700151, BU939732
    Consensus CDS
    CCDS38717.1
    UniProtKB/Swiss-Prot
    Q0GC36, Q2MH31, Q9D1B3
    Related
    ENSMUSP00000030152.7, ENSMUST00000030152.13
    Conserved Domains (1) summary
    pfam15181
    Location:1 → 260
    SMRP1; Spermatid-specific manchette-related protein 1

  2. NM_001253777.1 → NP_001240706.1  sperm microtubule inner protein 6 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site that results in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (3) has a distinct and longer C-terminus, compared to isoform 1.
    Source sequence(s)
    AL831723
    UniProtKB/Swiss-Prot
    Q2MH31
    Conserved Domains (1) summary
    pfam15181
    Location:1 → 255
    SMRP1; Spermatid-specific manchette-related protein 1

  3. NM_001253778.1 → NP_001240707.1  sperm microtubule inner protein 6 isoform 4

    See identical proteins and their annotated locations for NP_001240707.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR, lacks a portion of the 5' coding region, uses a downstream in-frame start codon, and uses an alternate splice site that results in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (4) is shorter at the N-terminus and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AL831723
    UniProtKB/Swiss-Prot
    Q2MH31
    Conserved Domains (1) summary
    pfam15181
    Location:1 → 121
    SMRP1; Spermatid-specific manchette-related protein 1

  4. NM_001253780.1 → NP_001240709.1  sperm microtubule inner protein 6 isoform 5

    See identical proteins and their annotated locations for NP_001240709.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) differs in the 5' UTR, lacks a portion of the 5' coding region, uses a downstream in-frame start codon, and lacks an exon that results in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (5) is shorter at the N-terminus and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AL831723
    Related
    ENSMUST00000123865.8
    Conserved Domains (1) summary
    pfam15181
    Location:1 → 21
    SMRP1; Spermatid-specific manchette-related protein 1

  5. NM_001253788.1 → NP_001240717.1  sperm microtubule inner protein 6 isoform 6

    See identical proteins and their annotated locations for NP_001240717.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) lacks an alternate exon that results in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (6) has a distinct and shorter C-terminus, compared to isoform 1.
    Source sequence(s)
    AL831723
    Consensus CDS
    CCDS57265.1
    UniProtKB/TrEMBL
    A2ANN9
    Related
    ENSMUSP00000092744.5, ENSMUST00000095126.5
    Conserved Domains (1) summary
    pfam15181
    Location:1 → 155
    SMRP1; Spermatid-specific manchette-related protein 1

  6. NM_028624.1 → NP_082900.1  sperm microtubule inner protein 6 isoform 2

    See identical proteins and their annotated locations for NP_082900.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and uses a downstream in-frame start codon, compared to variant 1. The encoded isoform (2) is shorter at the N-terminus, compared to isoform 1.
    Source sequence(s)
    AK003742, BU700151, CA463601
    UniProtKB/Swiss-Prot
    Q2MH31
    Related
    ENSMUST00000124019.8
    Conserved Domains (1) summary
    pfam15181
    Location:1 → 126
    SMRP1; Spermatid-specific manchette-related protein 1

RNA

  1. NR_045549.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate splice site at an internal exon, compared to variant 1. It is represented as non-coding because the use of the 5'-most translational start codon, as used in variant 1, renders this transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL831723

  2. NR_045551.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) contains alternate 5' exon structure, and uses an alternate splice site at an internal exon, compared to variant 1. It is represented as non-coding because the use of the 5'-most translational start codon, as used in variant 2, renders this transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL831723
    Related
    ENSMUST00000123356.8

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
    41505005..41517333 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006538307.5 → XP_006538370.1  sperm microtubule inner protein 6 isoform X1

    UniProtKB/TrEMBL
    F7CUE2
    Related
    ENSMUSP00000122537.2, ENSMUST00000125303.8
    Conserved Domains (1) summary
    pfam15181
    Location:1 → 205
    SMRP1; Spermatid-specific manchette-related protein 1

  2. XM_030253836.1 → XP_030109696.1  sperm microtubule inner protein 6 isoform X3

    Conserved Domains (1) summary
    pfam15181
    Location:1 → 210
    SMRP1; Spermatid-specific manchette-related protein 1

  3. XM_006538308.4 → XP_006538371.1  sperm microtubule inner protein 6 isoform X2

    UniProtKB/TrEMBL
    F7CUE2
    Conserved Domains (1) summary
    pfam15181
    Location:22 → 199
    SMRP1; Spermatid-specific manchette-related protein 1

  4. XM_030253837.2 → XP_030109697.1  sperm microtubule inner protein 6 isoform X4

    Conserved Domains (1) summary
    pfam15181
    Location:22 → 204
    SMRP1; Spermatid-specific manchette-related protein 1
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q2MH31.1 GenPept UniProtKB/Swiss-Prot:Q2MH31

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