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Specc1 sperm antigen with calponin homology and coiled-coil domains 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 303208, updated on 3-Apr-2024

Summary

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Official Symbol
Specc1provided by RGD
Official Full Name
sperm antigen with calponin homology and coiled-coil domains 1provided by RGD
Primary source
RGD:1309718
See related
Ensembl:ENSRNOG00000002903 AllianceGenome:RGD:1309718
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Cytsb; RGD1309718
Summary
Predicted to be involved in actin cytoskeleton organization. Predicted to be located in cytosol; fibrillar center; and nucleoplasm. Predicted to be part of filamentous actin. Predicted to be active in microtubule organizing center. Orthologous to human SPECC1 (sperm antigen with calponin homology and coiled-coil domains 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Brain (RPKM 105.7), Spleen (RPKM 69.8) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
10q22-q23
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (47138351..47412311)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (46638947..46912989)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (48240291..48542171)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene unc-51 like autophagy activating kinase 2 Neighboring gene U6 spliceosomal RNA Neighboring gene A-kinase anchoring protein 10 Neighboring gene uncharacterized LOC134480803 Neighboring gene uncharacterized LOC134480804 Neighboring gene U2 spliceosomal RNA Neighboring gene selenoprotein W, pseudogene 1 Neighboring gene adenosine A2B receptor Neighboring gene zinc finger, SWIM-type containing 7 Neighboring gene tetratricopeptide repeat domain 19

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC116245

Gene Ontology Provided by RGD

Process Evidence Code Pubs
involved_in actin cytoskeleton organization IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within associative learning ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within blastocyst development ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in apical part of cell ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
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
  
located_in intracellular membrane-bounded organelle ISO
Inferred from Sequence Orthology
more info
  
is_active_in microtubule organizing center IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
cytospin-B

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_001039017.1 → NP_001034106.1  cytospin-B isoform 1

    See identical proteins and their annotated locations for NP_001034106.1

    Status: PROVISIONAL

    Source sequence(s)
    BC099105
    UniProtKB/TrEMBL
    A6HF92, Q4KLM7
    Related
    ENSRNOP00000054612.2, ENSRNOT00000057798.3
    Conserved Domains (1) summary
    cl09111
    Location:636 → 731
    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_001428980.1 → NP_001415909.1  cytospin-B isoform 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000010

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086028.1 Reference GRCr8

    Range
    47138351..47412311
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063269013.1 → XP_063125083.1  cytospin-B isoform X1

  2. XM_063269014.1 → XP_063125084.1  cytospin-B isoform X3

  3. XM_006246502.5 → XP_006246564.2  cytospin-B isoform X1

    UniProtKB/TrEMBL
    A0A0G2K5D7
    Conserved Domains (2) summary
    TIGR04523
    Location:363 → 782
    Mplasa_alph_rch; helix-rich Mycoplasma protein
    cd21257
    Location:946 → 1057
    CH_CYTSB; calponin homology (CH) domain found in cytospin-B

  4. XM_006246503.5 → XP_006246565.2  cytospin-B isoform X2

    UniProtKB/TrEMBL
    A0A0G2K5D7
    Conserved Domains (3) summary
    PRK00409
    Location:603 → 703
    PRK00409; recombination and DNA strand exchange inhibitor protein; Reviewed
    TIGR02168
    Location:278 → 646
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type
    cd21257
    Location:866 → 977
    CH_CYTSB; calponin homology (CH) domain found in cytospin-B

  5. XM_039085967.2 → XP_038941895.1  cytospin-B isoform X4

    Conserved Domains (1) summary
    TIGR02168
    Location:278 → 646
    SMC_prok_B; chromosome segregation protein SMC, common bacterial type

  6. XM_039085968.2 → XP_038941896.1  cytospin-B isoform X5

    Conserved Domains (2) summary
    COG1196
    Location:58 → 211
    Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
    cl00030
    Location:368 → 479
    CH_SF; calponin homology (CH) domain superfamily
Nucleotide Protein Strain
Heading Accession and Version

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