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Clhc1 clathrin heavy chain linker domain containing 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 289865, updated on 5-Mar-2024

Summary

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Official Symbol
Clhc1provided by RGD
Official Full Name
clathrin heavy chain linker domain containing 1provided by RGD
Primary source
RGD:1307937
See related
Ensembl:ENSRNOG00000004456 AllianceGenome:RGD:1307937
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1307937
Summary
Orthologous to human CLHC1 (clathrin heavy chain linker domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Restricted expression toward (RPKM 181.1) See more
Orthologs
human mouse all
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Genomic context

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See Clhc1 in Genome Data Viewer
Location:
14q22
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 14 NC_086032.1 (107488983..107529667)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 14 NC_051349.1 (103288116..103328725)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 14 NC_005113.4 (113968563..114008015)

Chromosome 14 - NC_086032.1Genomic Context describing neighboring genes Neighboring gene mitochondrial translational initiation factor 2 Neighboring gene ribosomal protein S27a Neighboring gene NADH:ubiquinone oxidoreductase subunit S5, pseudogene 1 Neighboring gene reticulon 4 Neighboring gene EMAP like 6

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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Homology

General protein information

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Preferred Names
clathrin heavy chain linker domain-containing protein 1
Names
uncharacterized protein C2orf63 homolog

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_001013877.1 → NP_001013899.1  clathrin heavy chain linker domain-containing protein 1

    See identical proteins and their annotated locations for NP_001013899.1

    Status: PROVISIONAL

    Source sequence(s)
    BC083604
    UniProtKB/Swiss-Prot
    Q5XIR8
    Related
    ENSRNOP00000006085.3, ENSRNOT00000006085.6
    Conserved Domains (2) summary
    pfam13838
    Location:297 → 354
    Clathrin_H_link; Clathrin-H-link
    pfam15739
    Location:30 → 136
    TSNAXIP1_N; Translin-associated factor X-interacting N-terminus

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_086032.1 Reference GRCr8

    Range
    107488983..107529667
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039091778.2 → XP_038947706.1  clathrin heavy chain linker domain-containing protein 1 isoform X4

    Conserved Domains (2) summary
    pfam13838
    Location:234 → 295
    Clathrin_H_link; Clathrin-H-link
    pfam15739
    Location:30 → 144
    TSNAXIP1_N; Translin-associated factor X-interacting N-terminus

  2. XM_017599141.3 → XP_017454630.1  clathrin heavy chain linker domain-containing protein 1 isoform X1

    UniProtKB/TrEMBL
    A6JQB9
    Conserved Domains (2) summary
    pfam13838
    Location:307 → 361
    Clathrin_H_link; Clathrin-H-link
    pfam15739
    Location:30 → 144
    TSNAXIP1_N; Translin-associated factor X-interacting N-terminus

  3. XM_063272988.1 → XP_063129058.1  clathrin heavy chain linker domain-containing protein 1 isoform X5

  4. XM_017599142.3 → XP_017454631.1  clathrin heavy chain linker domain-containing protein 1 isoform X1

    UniProtKB/TrEMBL
    A6JQB9
    Conserved Domains (2) summary
    pfam13838
    Location:307 → 361
    Clathrin_H_link; Clathrin-H-link
    pfam15739
    Location:30 → 144
    TSNAXIP1_N; Translin-associated factor X-interacting N-terminus

  5. XM_008770455.4 → XP_008768677.1  clathrin heavy chain linker domain-containing protein 1 isoform X2

    See identical proteins and their annotated locations for XP_008768677.1

    UniProtKB/Swiss-Prot
    Q5XIR8
    Conserved Domains (2) summary
    pfam13838
    Location:297 → 354
    Clathrin_H_link; Clathrin-H-link
    pfam15739
    Location:30 → 136
    TSNAXIP1_N; Translin-associated factor X-interacting N-terminus

  6. XM_039091777.2 → XP_038947705.2  clathrin heavy chain linker domain-containing protein 1 isoform X3

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5XIR8.1 GenPept UniProtKB/Swiss-Prot:Q5XIR8

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