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

Gene ID: 240084, updated on 5-Mar-2024

Summary

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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. Orthologous to human CCHCR1 (coiled-coil alpha-helical rod protein 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in testis adult (RPKM 83.7), CNS E11.5 (RPKM 7.5) and 1 other tissue See more
Orthologs
human all
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Genomic context

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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

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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. 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 (20) 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

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Alleles

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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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
acts_upstream_of_or_within cell differentiation IEA
Inferred from Electronic Annotation
more info
  
involved_in cell differentiation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within multicellular organism development 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 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

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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)

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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_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

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