C19orf47
Chromosome 19 open reading frame 47 is a protein that in humans is encoded by the C19orf47 gene. Aliases include Chromosome 19 Open Reading Frame 47, FLJ36888, DKZp686P05129, and LOCI26526.[1]
Gene
Homo sapiens C19orf47 is located in cytogenetic band 19q13.2. It covers 28.98 kilobases from 40,854,420 to 40,825,543 on the minus strand.[2] The gene has 8 exons in the isoform 1 precursor, the last of which is the longest and comprises over half of the mRNA transcript.[1]
mRNA
Transcription of Homo sapiens C19orf47 produces 13 different mRNAs, with 12 alternatively spliced variants and 1 unspliced form. Isoforms and the proteins encoded by them are shown in the table below. Homo sapiens C19orf47 has broad expression in heart, testes, and other tissues.
Isoforms of C19orf47.
| Isoform number | Nucleotide Accession | mRNA length (bp) | Protein Accession | Protein Length (aa) |
| NM1 | NM_001256440.1 | 2104 | NP_001243369.1 | 422 |
| NM2 | NM_001256441.2 | 3611 | NP_001243370.1 | 385 |
| X1 | XM_017026291.2 | 3608 | XP_016881780.1 | 384 |
| X2 | XM_005258520.3 | 3625 | XP_005258577.1 | 421 |
| X3 | XM_017026292.3 | 1407 | XP_016881781.1 | 366 |
| X4 | XM_017026293.3 | 1404 | XP_016881782.1 | 365 |
| X5 | XM_047438175.1 | 1421 | XP_047294131.1 | 402 |
| X6 | XM_024451364.2 | 3507 | XP_024307132.1 | 344 |
| X7 | XM_047438176.1 | 3504 | XP_047294132.1 | 343 |
| X8 | XM_024451365.2 | 4638 | XP_024307133.1 | 385 |
| X8 | XM_047438177.1 | 4671 | XP_047294133.1 | 385 |
| X9 | XM_011526460.3 | 3524 | XP_011524762.1 | 381 |
| X10 | XM_047438178.1 | 3668 | XP_047294134.1 | 355 |
| X11 | XM_047438179.1 | 3241 | XP_047294135.1 | 281 |
Protein
The C19orf47 gene isoform 1 precursor encodes for a 422 amino acid protein. The protein is located in the nucleoplasm and nucleus of the cell.
Interacting Proteins
The following proteins have predicted interactions with C19orf47. Interacting proteins with C19orf47 in humans. Notes with important information are shown.
| Abbreviated Name | Full Name | Additional Notes |
| PARK2 | Parkin RBR E3 Ubiquitin Protein Ligase | Component of multiprotein E3 ubiquitin ligase complex. Mutations are known to cause Parkinson’s disease. |
| NSP3 | Non-structural protein 3 | SARS-CoV-2 protein |
| ORF14 | Open reading frame 14 | SARS-CoV-2 protein |
| MYC | V-Myc Avian Myelocytomatosis Viral Oncogene Homolog 2 3 | Proto-oncogene, forms a heterodimer with related transcription factor for MAX. |
| DDX39B | DExD-Box Helicase 39B | RNA-dependent ATPase that mediates ATP hydrolysis during mRNA splicing. |
| C17orf85 | Nuclear Cap-Binding Protein Subunit 3 | Associates with NCBP1/CBP80 to form an alternative cap-binding complex (CBC) which plays a key role in mRNA export. |
| NXF1 | Nuclear RNA Export Factor 1 | Member of a family of nuclear RNA export factor genes. |
| THOC2 | THO Complex 2 | Multiprotein complex binds specifically to spliced mRNAs to facilitate mRNA export. |
| YWHAQ | Tyrosine 3-Monooxygenase/Tryptophan 5-Monooxygenase Activation Protein, Theta Polypeptide | Mediates signal transduction by binding to phosphoserine-containing proteins. |
Homology
C19orf47 is found in organisms including mammals, reptiles, amphibian, fish, insects, and plant.[3]
Current orthologs of human C19orf47. Sequence identity and similarity are shown.
| C19orf47 | Genus, Species | Common Name | Taxonomic Group | Date of Divergence (MYA) | Accession Number | Sequence Length (aa) | Identity | Similarity |
| Mammalia | Homo sapiens | Human | Primates | 0 | NP_001243369.1 | 422 | 100.0% | 100.0% |
| Mus musculus | Mouse | Rodentia | 87 | XP_036009244.1 | 397 | 75.5% | 80.2% | |
| Castor canadensis | American Beaver | Rodentia | 87 | XP_020022531.1 | 382 | 71.3% | 74.7% | |
| Reptilia | Gopherus flavomarginatus | Bolson Tortoise | Testudines | 319 | XP_050784538.1 | 386 | 63.3% | 72.9% |
| Dermochelys coriacea | Leatherback Sea Turtle | Testudines | 319 | XP_038238045.2 | 449 | 62.3% | 72.0% | |
| Varanus komodoensis | Komodo Dragon | Squamata | 319 | XP_044281356.1 | 395 | 60.2% | 69.2% | |
| Alligator sinensis | Chinese Alligator | Crocodylia | 319 | XP_025068843.1 | 388 | 54.7% | 63.3% | |
| Aves | Haliaeetus leucocephalus | Bald Eagle | Falconiformes | 319 | XP_010564700.1 | 380 | 60.2% | 69.1% |
| Phalacrocorax carbo | Great Cormorant | Suliformes | 319 | XP_009501755.1 | 381 | 58.5% | 67.3% | |
| Gallus gallus | Chicken | Galliformes | 319 | XP_015129410.4 | 374 | 36.6% | 45.5% | |
| Amphibia | Xenopus tropicalis | Frog | Anura | 352 | NP_001005016.1 | 398 | 54.2% | 64.5% |
| Fish | Protopterus annectens | West African Lungfish | Lepidosireniformes | 408 | XP_043937251.1 | 393 | 46.4% | 57.0% |
| Latimeria chalumnae | West Indian Ocean Coelacanth | Coelacanthiformes | 415 | XP_014348608.1 | 381 | 58.2% | 69.7% | |
| Danio rerio | Zebrafish | Cypriniformes | 429 | NP_001038706.1 | 392 | 48.6% | 59.5% | |
| Leucoraja erinacea | Little Skate | Rajiformes | 462 | XP_055519598.1 | 395 | 53.0% | 64.2% | |
| Petromyzon marinus | Sea Lamprey | Petromyzontiformes | 563 | XP_032803651.1 | 452 | 41.6% | 52.4% | |
| Arthropods | Rhipicephalus sanguineus | Brown Dog Tick | Ixodida | 686 | XP_037499932.1 | 428 | 29.3% | 39.9% |
| Biomphalaria glabrata | Bloodfluke Planorb | Planorbidae | 686 | XP_055879100.1 | 370 | 26.6% | 36.0% | |
| Polistes fuscatus | Northern Paper Wasp | Hymenoptera | 686 | XP_043494673.1 | 409 | 24.1% | 39.3% | |
| Plants | Gossypium anomalum | Wild Cotton | Malvales | 1530 | KAG8495680.1 | 266 | 11.5% | 20.6% |
Clinical Significance
One study discusses the identification of four novel mutations in the TUBB4A gene associated with laryngeal and cervical dystonia, a rare neurological disorder. These mutations were found in several affected families, and the study highlights the complexity of this genetic condition, with evidence of incomplete penetrance in some cases. Laryngeal dystonia, often the initial symptom, is a prominent feature of the disease. Of note, there was presence of a variant in the C19orf47 gene in one family. It was shown that the variant in the gene TUBB4A was more likely to be the source of the phenotype, as C19orf47 has low expression in the brain.[4]
References
- ^ a b "Supplemental Information 2: Nucleotide sequence alignments of TiLV segment 9 sequences (n = 25) retrieved from the GenBank database at NCBI". doi:10.7717/peerj.13157/supp-2.
{{cite web}}: Missing or empty|url=(help) - ^ "AceView: Gene:C19orf47, a comprehensive annotation of human, mouse and worm genes with mRNAs or ESTsAceView". www.ncbi.nlm.nih.gov. Retrieved 2023-12-16.
- ^ "BLAST: Basic Local Alignment Search Tool". blast.ncbi.nlm.nih.gov. Retrieved 2023-12-16.
- ^ Bally, Julien F.; Camargos, Sarah; Oliveira dos Santos, Camila; Kern, Drew S.; Lee, Teresa; Pereira da Silva-Junior, Francisco; Puga, Renato David; Cardoso, Francisco; Barbosa, Egberto Reis; Yadav, Rachita; Ozelius, Laurie J.; de Carvalho Aguiar, Patricia; Lang, Anthony E. (2021-04-06). "DYT-TUBB4A (DYT4 Dystonia): New Clinical and Genetic Observations". Neurology. 96 (14): e1887–e1897. doi:10.1212/WNL.0000000000010882. ISSN 0028-3878. PMC 8105968. PMID 32943487.