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    Specc1 sperm antigen with calponin homology and coiled-coil domains 1 [ Mus musculus (house mouse) ]

    Gene ID: 432572, updated on 28-Oct-2021

    Summary

    Official Symbol
    Specc1provided by MGI
    Official Full Name
    sperm antigen with calponin homology and coiled-coil domains 1provided by MGI
    Primary source
    MGI:MGI:2442356
    See related
    Ensembl:ENSMUSG00000042331
    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
    Cytsb; 2810012G08Rik; B230396K10Rik
    Expression
    Broad expression in cerebellum adult (RPKM 11.0), liver E14.5 (RPKM 7.8) and 23 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Specc1 in Genome Data Viewer
    Location:
    11; 11 B2
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (61847589..62113839)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (61956763..62223013)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 11 NC_000077.5 (61890599..62036515)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 23721 Neighboring gene predicted gene 12273 Neighboring gene endothelial differentiation-related factor 1 pseudogene Neighboring gene surfeit gene 1 pseudogene Neighboring gene predicted gene, 39988 Neighboring gene predicted gene, 39985 Neighboring gene adenosine A2b receptor Neighboring gene zinc finger SWIM-type containing 7

    Genomic regions, transcripts, and products

    Expression

    • 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

    Variation

    Alleles

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

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • KIAA4061

    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 actin cytoskeleton organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    acts_upstream_of_or_within associative learning IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within blastocyst development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in apical part of cell IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in fibrillar center ISO
    Inferred from Sequence Orthology
    more info
     
    part_of filamentous actin IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in microtubule organizing center IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    cytospin-B
    Names
    spectrin domain with coiled-coils 1

    NCBI Reference Sequences (RefSeq)

    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_001029936.3NP_001025107.1  cytospin-B isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and lacks two 5' coding exons, compared to variant 1. It represents use of an internal promoter and initiates translation at an alternate start codon. The encoded isoform (2) is shorter and has a distinct N-terminus, compared to isoform 1.
      Source sequence(s)
      AL592080, AL596110
      Consensus CDS
      CCDS78966.1
      UniProtKB/TrEMBL
      A0A0J9YUR2
      Related
      ENSMUSP00000144300.2, ENSMUST00000202179.2
      Conserved Domains (3) summary
      cd00014
      Location:876976
      CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...
      pfam15290
      Location:41218
      Syntaphilin; Golgi-localized syntaxin-1-binding clamp
      cl09111
      Location:556651
      Prefoldin; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits ...
    2. NM_001281818.1NP_001268747.1  cytospin-B isoform 1

      See identical proteins and their annotated locations for NP_001268747.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK143663, AL592080, AL596110
      Consensus CDS
      CCDS78965.1
      UniProtKB/TrEMBL
      A0A0J9YTU3, Q3UPB2
      Related
      ENSMUSP00000144055.2, ENSMUST00000202389.4
      Conserved Domains (4) summary
      PRK00409
      Location:683783
      PRK00409; recombination and DNA strand exchange inhibitor protein; Reviewed
      TIGR02168
      Location:358726
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam00307
      Location:9551058
      CH; Calponin homology (CH) domain
      pfam09726
      Location:198504
      Macoilin; Macoilin family
    3. NM_001310526.1NP_001297455.1  cytospin-B isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks several exons and includes an alternate 3' terminal exon, compared to variant 1. It encodes isoform 3, which is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AK143663, AL592080, BF456202, CB722803, CF532211
      Consensus CDS
      CCDS78964.1
      UniProtKB/TrEMBL
      A0A0J9YUF8, Q3UPB2
      Related
      ENSMUSP00000144161.2, ENSMUST00000202178.4
      Conserved Domains (2) summary
      TIGR02168
      Location:358726
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam09726
      Location:198504
      Macoilin; Macoilin family

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000077.7 Reference GRCm39 C57BL/6J

      Range
      61847589..62113839
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006533656.4XP_006533719.1  cytospin-B isoform X2

      See identical proteins and their annotated locations for XP_006533719.1

      UniProtKB/TrEMBL
      A0A0J9YTU3
      Related
      ENSMUSP00000143853.2, ENSMUST00000201364.4
      Conserved Domains (4) summary
      PRK00409
      Location:683783
      PRK00409; recombination and DNA strand exchange inhibitor protein; Reviewed
      TIGR02168
      Location:358726
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam00307
      Location:9551058
      CH; Calponin homology (CH) domain
      pfam09726
      Location:198504
      Macoilin; Macoilin family
    2. XM_030246110.2XP_030101970.1  cytospin-B isoform X4

      Related
      ENSMUSP00000063102.8, ENSMUST00000049836.14
      Conserved Domains (2) summary
      TIGR02168
      Location:358726
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam09726
      Location:198504
      Macoilin; Macoilin family
    3. XM_030246108.1XP_030101968.1  cytospin-B isoform X1

      Conserved Domains (5) summary
      PHA03307
      Location:36151
      PHA03307; transcriptional regulator ICP4; Provisional
      COG1196
      Location:165533
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      PRK00409
      Location:697797
      PRK00409; recombination and DNA strand exchange inhibitor protein; Reviewed
      TIGR02168
      Location:372740
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam00307
      Location:9691072
      CH; Calponin homology (CH) domain
    4. XM_030246109.1XP_030101969.1  cytospin-B isoform X3

      Conserved Domains (3) summary
      PHA03307
      Location:36151
      PHA03307; transcriptional regulator ICP4; Provisional
      TIGR02168
      Location:372740
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      pfam09726
      Location:212518
      Macoilin; Macoilin family
    5. XM_017314640.2XP_017170129.1  cytospin-B isoform X5

      Related
      ENSMUSP00000144542.2, ENSMUST00000201723.4
      Conserved Domains (3) summary
      TIGR02168
      Location:278646
      SMC_prok_B; chromosome segregation protein SMC, common bacterial type
      TIGR04211
      Location:83179
      SH3_and_anchor; SH3 domain protein
      cl15483
      Location:201347
      Hid1; High-temperature-induced dauer-formation protein
    6. XM_036156821.1XP_036012714.1  cytospin-B isoform X6

      Related
      ENSMUSP00000144174.2, ENSMUST00000201015.4
      Conserved Domains (2) summary
      COG1196
      Location:15168
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      cl00030
      Location:325436
      CH_SF; calponin homology (CH) domain superfamily
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