U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Cchcr1 coiled-coil alpha-helical rod protein 1 [ Mus musculus (house mouse) ]

    Gene ID: 240084, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Cchcr1provided by MGI
    Official Full Name
    coiled-coil alpha-helical rod protein 1provided by MGI
    Primary source
    MGI:MGI:2385321
    See related
    Ensembl:ENSMUSG00000040312 AllianceGenome:MGI:2385321
    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
    Hcr
    Summary
    Predicted to enable identical protein binding activity. Acts upstream of or within protein export from nucleus. Located in cytoplasm. Is expressed in brain ventricular layer; inferior colliculus; and pancreas epithelium. Used to study alopecia areata. Orthologous to human CCHCR1 (coiled-coil alpha-helical rod protein 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in testis adult (RPKM 83.7), CNS E11.5 (RPKM 7.5) and 1 other tissue See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Cchcr1 in Genome Data Viewer
    Location:
    17 B1; 17 18.69 cM
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (35827914..35841912)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (35517049..35531015)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene Pou5f1 5' regulatory region Neighboring gene STARR-seq mESC enhancer starr_42459 Neighboring gene POU domain, class 5, transcription factor 1 Neighboring gene STARR-positive B cell enhancer mm9_chr17:35653747-35654048 Neighboring gene transcription factor 19 Neighboring gene psoriasis susceptibility 1 candidate 2 (human) Neighboring gene STARR-seq mESC enhancer starr_42461 Neighboring gene corneodesmosin

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Alopecia areata susceptibility variant in MHC region impacts expressions of genes contributing to hair keratinization and is involved in hair loss. Oka A, et al. EBioMedicine, 2020 Jul. PMID 32580135, Free PMC Article
    2. The PSORS1 locus gene CCHCR1 affects keratinocyte proliferation in transgenic mice. Tiala I, et al. Hum Mol Genet, 2008 Apr 1. PMID 18174193
    3. CCHCR1 interacts with EDC4, suggesting its localization in P-bodies. Ling YH, et al. Exp Cell Res, 2014 Sep 10. PMID 24858563
    4. RNA polymerase II subunit 3 is retained in the cytoplasm by its interaction with HCR, the psoriasis vulgaris candidate gene product. Corbi N, et al. J Cell Sci, 2005 Sep 15. PMID 16141233
    5. Identification of transcripts with enriched expression in the developing and adult pancreas. Hoffman BG, et al. Genome Biol, 2008. PMID 18554416, Free PMC Article

    See all (21) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Alopecia areata susceptibility variant in MHC region impacts expressions of genes contributing to hair keratinization and is involved in hair loss.
      Title: Alopecia areata susceptibility variant in MHC region impacts expressions of genes contributing to hair keratinization and is involved in hair loss.
    Submit: New GeneRIF Correction

    Variation

    Go to the top of the page Help

    Alleles

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

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Homology

    Clone Names

    • MGC28303

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein export from nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within protein export from nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in centriole IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in centriole ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in centriole ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    coiled-coil alpha-helical rod protein 1
    Names
    HCR (a-helix coiled-coil rod homolog)
    alpha-helical coiled-coil rod protein

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001372297.1 → NP_001359226.1  coiled-coil alpha-helical rod protein 1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      CU467494
      UniProtKB/TrEMBL
      Q3TWA2
      Conserved Domains (1) summary
      pfam07111
      Location:110 → 841
      HCR; Alpha helical coiled-coil rod protein (HCR)

    2. NM_001372298.1 → NP_001359227.1  coiled-coil alpha-helical rod protein 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      CU467494
      Consensus CDS
      CCDS50090.1
      UniProtKB/Swiss-Prot
      G3UWG0, Q8K2I2
      UniProtKB/TrEMBL
      Q3TWA2
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 758
      HCR; Alpha helical coiled-coil rod protein (HCR)

    3. NM_001372299.1 → NP_001359228.1  coiled-coil alpha-helical rod protein 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      CU467494
      Consensus CDS
      CCDS50090.1
      UniProtKB/Swiss-Prot
      G3UWG0, Q8K2I2
      UniProtKB/TrEMBL
      Q3TWA2
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 758
      HCR; Alpha helical coiled-coil rod protein (HCR)

    4. NM_001372300.1 → NP_001359229.1  coiled-coil alpha-helical rod protein 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      CU467494
      Consensus CDS
      CCDS50090.1
      UniProtKB/Swiss-Prot
      G3UWG0, Q8K2I2
      UniProtKB/TrEMBL
      Q3TWA2
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 758
      HCR; Alpha helical coiled-coil rod protein (HCR)

    5. NM_146248.3 → NP_666360.2  coiled-coil alpha-helical rod protein 1 isoform 2

      See identical proteins and their annotated locations for NP_666360.2

      Status: VALIDATED

      Source sequence(s)
      CU467494
      Consensus CDS
      CCDS50090.1
      UniProtKB/Swiss-Prot
      G3UWG0, Q8K2I2
      UniProtKB/TrEMBL
      Q3TWA2
      Related
      ENSMUSP00000132028.3, ENSMUST00000164242.9
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 758
      HCR; Alpha helical coiled-coil rod protein (HCR)

    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_000083.7 Reference GRCm39 C57BL/6J

      Range
      35827914..35841912
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036160605.1 → XP_036016498.1  coiled-coil alpha-helical rod protein 1 isoform X3

      UniProtKB/TrEMBL
      Q3TWA2
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 772
      HCR; Alpha helical coiled-coil rod protein (HCR)

    2. XM_011246451.3 → XP_011244753.1  coiled-coil alpha-helical rod protein 1 isoform X3

      See identical proteins and their annotated locations for XP_011244753.1

      UniProtKB/TrEMBL
      Q3TWA2
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 772
      HCR; Alpha helical coiled-coil rod protein (HCR)

    3. XM_011246448.3 → XP_011244750.1  coiled-coil alpha-helical rod protein 1 isoform X3

      See identical proteins and their annotated locations for XP_011244750.1

      UniProtKB/TrEMBL
      Q3TWA2
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 772
      HCR; Alpha helical coiled-coil rod protein (HCR)

    4. XM_011246450.3 → XP_011244752.1  coiled-coil alpha-helical rod protein 1 isoform X3

      See identical proteins and their annotated locations for XP_011244752.1

      UniProtKB/TrEMBL
      Q3TWA2
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 772
      HCR; Alpha helical coiled-coil rod protein (HCR)

    5. XM_011246445.2 → XP_011244747.1  coiled-coil alpha-helical rod protein 1 isoform X1

      See identical proteins and their annotated locations for XP_011244747.1

      UniProtKB/TrEMBL
      G3UWS7, Q3TWA2
      Related
      ENSMUSP00000133407.2, ENSMUST00000173903.2
      Conserved Domains (1) summary
      pfam07111
      Location:110 → 855
      HCR; Alpha helical coiled-coil rod protein (HCR)

    6. XM_011246446.3 → XP_011244748.1  coiled-coil alpha-helical rod protein 1 isoform X2

      See identical proteins and their annotated locations for XP_011244748.1

      UniProtKB/TrEMBL
      Q3TWA2
      Conserved Domains (1) summary
      pfam07111
      Location:110 → 842
      HCR; Alpha helical coiled-coil rod protein (HCR)

    7. XM_011246449.1 → XP_011244751.1  coiled-coil alpha-helical rod protein 1 isoform X3

      See identical proteins and their annotated locations for XP_011244751.1

      UniProtKB/TrEMBL
      Q3TWA2
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 772
      HCR; Alpha helical coiled-coil rod protein (HCR)

    8. XM_011246452.1 → XP_011244754.1  coiled-coil alpha-helical rod protein 1 isoform X3

      See identical proteins and their annotated locations for XP_011244754.1

      UniProtKB/TrEMBL
      Q3TWA2
      Conserved Domains (1) summary
      pfam07111
      Location:27 → 772
      HCR; Alpha helical coiled-coil rod protein (HCR)

    9. XM_011246454.4 → XP_011244756.1  coiled-coil alpha-helical rod protein 1 isoform X4

      See identical proteins and their annotated locations for XP_011244756.1

      UniProtKB/TrEMBL
      Q3TWA2
      Conserved Domains (1) summary
      pfam07111
      Location:1 → 653
      HCR; Alpha helical coiled-coil rod protein (HCR)

    RNA

    1. XR_004939528.1 RNA Sequence

    2. XR_003952119.1 RNA Sequence

    3. XR_004939530.1 RNA Sequence

    4. XR_004939529.1 RNA Sequence

    5. XR_004939525.1 RNA Sequence

    6. XR_004939526.1 RNA Sequence

    7. XR_004939527.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8K2I2.3 GenPept UniProtKB/Swiss-Prot:Q8K2I2

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools