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Specc1l sperm antigen with calponin homology and coiled-coil domains 1-like [ Rattus norvegicus (Norway rat) ]

Gene ID: 361828, updated on 9-Dec-2024

Summary

Symbol
Specc1lprovided by RGD
Full Name
sperm antigen with calponin homology and coiled-coil domains 1-likeprovided by RGD
Primary source
RGD:1309570
See related
EnsemblRapid:ENSRNOG00000001303 AllianceGenome:RGD:1309570
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
Cytsa; RGD1309570
Summary
Predicted to enable beta-catenin binding activity. Predicted to be involved in actin cytoskeleton organization. Predicted to act upstream of or within several processes, including anterior neural tube closure; negative regulation of protein depolymerization; and positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction. Predicted to be located in cell-cell junction; cytoplasm; and cytoskeleton. Predicted to be part of filamentous actin. Predicted to be active in microtubule organizing center. Human ortholog(s) of this gene implicated in Teebi hypertelorism syndrome 1 and oblique facial clefting 1. Orthologous to human SPECC1L (sperm antigen with calponin homology and coiled-coil domains 1 like). [provided by Alliance of Genome Resources, Dec 2024]
Expression
Biased expression in Lung (RPKM 344.4), Spleen (RPKM 131.6) and 9 other tissues See more
Orthologs
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Genomic context

See Specc1l in Genome Data Viewer
Location:
20p12
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (13337399..13443080, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (13337983..13443665, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (14287470..14393879, complement)

Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134483785 Neighboring gene uncharacterized LOC120098899 Neighboring gene adenosine A2a receptor Neighboring gene uncharacterized LOC120098869 Neighboring gene ATP synthase membrane subunit f, pseudogene 5 Neighboring gene BCR activator of RhoGEF and GTPase Neighboring gene RAB36, member RAS oncogene family

Genomic regions, transcripts, and products

Expression

  • 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

Interactions

General gene information

Gene Ontology Provided by RGD

Component Evidence Code Pubs
located_in actin cytoskeleton  
located_in cell-cell junction  
located_in cytoplasm  
located_in cytoplasm  
part_of filamentous actin  
part_of filamentous actin  
located_in gap junction  
located_in microtubule cytoskeleton  
is_active_in microtubule organizing center  
located_in microtubule organizing center  
located_in spindle  

General protein information

Preferred Names
cytospin-A
Names
28S ribosomal protein S7, mitochondrial-like
SPECC1-like protein

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_001039455.2NP_001034544.1  cytospin-A

    See identical proteins and their annotated locations for NP_001034544.1

    Status: VALIDATED

    Source sequence(s)
    AY884296
    UniProtKB/Swiss-Prot
    Q2KN99
    UniProtKB/TrEMBL
    A0A8I5ZSC5, A6JKL5
    Related
    ENSRNOP00000001764.4, ENSRNOT00000001764.7
    Conserved Domains (3) summary
    cd00014
    Location:10161116
    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 ...
    cl19219
    Location:626703
    DUF342; Protein of unknown function (DUF342)
    cl21494
    Location:852969
    Abhydrolase; alpha/beta hydrolases

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_086038.1 Reference GRCr8

    Range
    13337399..13443080 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063279246.1XP_063135316.1  cytospin-A isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZSC5
  2. XM_063279247.1XP_063135317.1  cytospin-A isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZSC5
  3. XM_006256339.5XP_006256401.1  cytospin-A isoform X2

    See identical proteins and their annotated locations for XP_006256401.1

    UniProtKB/Swiss-Prot
    Q2KN99
    UniProtKB/TrEMBL
    A0A8I5ZSC5, A6JKL5
    Conserved Domains (3) summary
    cd00014
    Location:10161116
    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 ...
    cl19219
    Location:626703
    DUF342; Protein of unknown function (DUF342)
    cl21494
    Location:852969
    Abhydrolase; alpha/beta hydrolases
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