Wikipedia

C3orf80

(Redirected from Draft:C3orf80)

Membrane protein C3orf80 (C3orf80) is a human protein encoded by the C3orf80 gene.[5]

C3orf80
Identifiers
AliasesC3orf80, chromosome 3 open reading frame 80
External IDsMGI: 1915975; HomoloGene: 110165; GeneCards: C3orf80; OMA:C3orf80 - orthologs
Orthologs
SpeciesHumanMouse
Entrez

401097

68725

Ensembl

ENSG00000180044

ENSMUSG00000046999

UniProt

F5H4A9

E9Q0B3

RefSeq (mRNA)

NM_001168214

NM_001167996

RefSeq (protein)

NP_001161686

NP_001161468

Location (UCSC)Chr 3: 160.23 – 160.23 MbChr 3: 68.78 – 68.78 Mb
PubMed search[3][4]
Wikidata
View/Edit HumanView/Edit Mouse

Gene

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C3orf80 is on chromosome 3 from 160,225,422 to 160,228,213 bp.[6] It spans 2,792 bases on the plus strand and contains only one exon.[5]

Neighboring genes of C3orf80 include IFT80, BRD7P2, and SMC4.[5]

Gene Orientation Location Function
IFT80 Minus strand 160,256,986-160,399,880 Part of IFT complex B[7]
BRD7P2 Plus strand 160,100,691-160,102,912 Pseudogene of BRD7[8]
SMC4 Plus strand 160,399,274-160,434,954 Part of the condensin complex[9]

Transcript

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The mRNA transcript of human C3orf80 contains no introns, has only one isoform, and the complete sequence has been found.[5][10]

Expression

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PROTTER diagram of C3orf80[11]
 
Annotated AlphaFold model of C3orf80[12]

Expression of C3orf80 is highest in the cerebral cortex, esophagus, and colon.[13] A higher expression of C3orf80 has been observed from multiple sclerosis brain lesions.[14][15] Expression of C3orf80 has also been found by machine learning to be associated with different forms of cancer. A two-fold increase in expression was found in low-grade glioma based on whether the cells expressed CMTM3 or not.[16] A 107.61 fold increase in expression was seen after inhibition of CLIC1 in esophageal squamous cell carcinoma.[17] C3orf80 was one of three genes' expression levels found to form the best machine learning model for predicting invasive carcinoma.[18] Finally, C3orf80 was one of 34 genes used in a machine learning model to predict if patients had a response to FOLFIRI chemotherapy.[19]

Protein

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C3orf80 is 247 amino acids long, has a molecular weight of 25.6 kDa before modifications, and has been proven to exist at the protein level, however, the tertiary structure is unknown.[6] The protein is annotated to be a single-pass membrane protein, localizing at the cell membrane.[20] The amino acid sequence of C3orf80 contains a signal peptide, transmembrane region, disordered region, glycosylation, and domain of unknown function 4719 (DUF4719).[20]

 
Graph showing corrected percent differences between orthologs and human genes over date of divergence.

Within humans, there is 0.02 ppm of C3orf80, a relatively low amount compared to other proteins.[21] Immunochemical staining has shown protein localization in cilia of glandular cells of the human fallopian tube.[22]

Evolution

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Orthologs

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Orthologs of human C3orf80 are specific to vertebrates.[23] The farthest ortholog of human C3orf80 is found in Callorhinchus milii, with a date of divergence of 462 million years ago.[24] Orthologs can be found in all major groups from Chondrichthyes to Mammalia; however, Aves have very unique orthologs of C3orf80 compared to any other group.[25][26]

Scientific Name Common Name Group Date of Divergence (mya)[27] Ortholog Accession Number Sequence Length Sequence Identity[28] Sequence Similarity[28]
Homo sapiens Human Mammalia 0 NP_001161686.1[5] 247 100% 100%
Mus musculus House mouse Mammalia 87 NP_001161468.1[29] 247 92% 94%
Antechinus flavipes Yellow-footed antechinus Marsupialia 160 XP_051839055.1[30] 237 59% 65%
Sarcophilus harrisii Tasmanian devil Marsupialia 160 XP_031813452.1[31] 239 58% 65%
Alligator mississippiensis American alligator Reptilia 319 XP_019347204.1[32] 210 54% 58%
Mauremys mutica Yellow pond turtle Reptilia 319 XP_044885017.1[33] 203 50% 54%
Prinia subflava Tawny-flanked prinia Aves 319 XP_063264524.1[34] 179 27% 33%
Gallus gallus Red junglefowl Aves 319 XP_025009399.2[35] 145 26% 31%
Aquila chrysaetos Golden eagle Aves 319 XP_029884193.1[36] 319 20% 25%
Pseudophryne corroboree Southern corroboree frog Amphibia 352 XP_063772225.1[37] 194 48% 54%
Bufo bufo Common toad Amphibia 352 XP_040286993.1[38] 189 46% 53%
Pleurodeles waltl Iberian ribbed newt Amphibia 352 KAJ1088024.1[39] 240 41% 47%
Rhinatrema bivittatum Rhinatrema Amphibia 352 XP_029473235.1[40] 206 41% 46%
Protopterus annectens West African lungfish Sarcopterygii 408 XP_043926856.1[41] 210 38% 44%
Latimeria chalumnae West Indian Ocean coelacanth Sarcopterygii 415 XP_006002129.1[42] 189 39% 44%
Polypterus senegalus Gray bichir Actinopterygii 429 XP_039612526.1[43] 196 34% 45%
Chelmon rostratus Copperband butterflyfish Actinopterygii 429 XP_041796725.1[44] 219 31% 42%
Danio rerio Zebrafish Actinopterygii 429 XP_068069764.1[45] 162 31% 39%
Stegostoma tigrinum Zebra shark Chondrichthyes 462 XP_048398267.1[46] 196 30% 40%
Callorhinchus milii Australian ghostshark Chondrichthyes 462 XP_007888000.1[47] 220 29% 35%

References

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  1. ^ a b c GRCh38: Ensembl release 89: ENSG00000180044 – Ensembl, May 2017
  2. ^ a b c GRCm38: Ensembl release 89: ENSMUSG00000046999 – Ensembl, May 2017
  3. ^ "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
  4. ^ "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
  5. ^ a b c d e "C3orf80 chromosome 3 open reading frame 80 [Homo sapiens (human)]". Gene. U.S. National Center for Biotechnology Information (NCBI). Retrieved 2024-09-21.
  6. ^ a b "C3orf80". GeneCards. Retrieved 2024-09-20.
  7. ^ "IFT80". GeneCards. Retrieved 2024-12-04.
  8. ^ "BRD7P2". GeneCards. Retrieved 2024-12-04.
  9. ^ "SMC4". GeneCards. Retrieved 2024-12-04.
  10. ^ "Homo sapiens chromosome 3 open reading frame 80 (C3orf80), mRNA". Nucleotide Database. U.S. National Center for Biotechnology Information (NCBI). 26 February 2021. Retrieved 2024-09-21.
  11. ^ "Welcome to Protter". Protter - interactive protein feature visualization. Retrieved 2024-12-04.
  12. ^ "AlphaFold Protein Structure Database". alphafold.ebi.ac.uk. Retrieved 2024-12-05.
  13. ^ "Tissue expression of C3orf80 - Summary - The Human Protein Atlas". www.proteinatlas.org. Retrieved 2024-12-05.
  14. ^ Han MH, Lundgren DH, Jaiswal S, Chao M, Graham KL, Garris CS, et al. (2012-06-25). "Janus-like opposing roles of CD47 in autoimmune brain inflammation in humans and mice". Journal of Experimental Medicine. 209 (7): 1325–1334. doi:10.1084/jem.20101974. ISSN 0022-1007. PMC 3405500. PMID 22734047.
  15. ^ "90455088 - GEO Profiles - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  16. ^ Li S, Gao P, Dai X, Ye L, Wang Z, Cheng H (February 2022). "New prognostic biomarker CMTM3 in low grade glioma and its immune infiltration". Annals of Translational Medicine. 10 (4): 206. doi:10.21037/atm-22-526. PMC 8908177. PMID 35280380.
  17. ^ Kobayashi T, Shiozaki A, Nako Y, Ichikawa D, Kosuga T, Shoda K, et al. (May 2018). "Chloride intracellular channel 1 as a switch among tumor behaviors in human esophageal squamous cell carcinoma". Oncotarget. 9 (33): 23237–23252. doi:10.18632/oncotarget.25296. PMC 5955400. PMID 29796185.
  18. ^ Wu Y, Min KY, Liu JF, Liang WF, Yang YH, Hu G, et al. (April 2024). "[Identification of Protein-Coding Gene Markers in Breast Invasive Carcinoma Based on Machine Learning]". Zhongguo Yi Xue Ke Xue Yuan Xue Bao. Acta Academiae Medicinae Sinicae. 46 (2): 147–153. doi:10.3881/j.issn.1000-503X.15717. PMID 38686709.
  19. ^ Amniouel S, Jafri MS (2024-01-18). "High-accuracy prediction of colorectal cancer chemotherapy efficacy using machine learning applied to gene expression data". Frontiers in Physiology. 14: 1272206. doi:10.3389/fphys.2023.1272206. PMC 10830836. PMID 38304289.
  20. ^ a b "Uncharacterized membrane protein C3orf80". Protein. U.S. National Center for Biotechnology Information (NCBI). Retrieved 2024-09-21.
  21. ^ "PaxDb: Protein Abundance Database". pax-db.org. Retrieved 2024-12-05.
  22. ^ "C3orf80 - Antibodies - The Human Protein Atlas". www.proteinatlas.org. Retrieved 2024-12-05.
  23. ^ "geneid:LOC401097". A comprehensive annotation of human, mouse and worm genes with mRNAs (ESTsAceView). U.S. National Center for Biotechnology Information (NCBI). Retrieved 2024-09-21.
  24. ^ "LOC103176350 uncharacterized membrane protein C3orf80 [Callorhinchus milii (elephant shark)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  25. ^ "C3orf80 C3orf80 homolog [Gallus gallus (chicken)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  26. ^ "C3orf80 orthologs". NCBI. Retrieved 2024-12-05.
  27. ^ "TimeTree :: The Timescale of Life". timetree.org. Retrieved 2024-12-05.
  28. ^ a b "EMBOSS Needle". www.ebi.ac.uk. Retrieved 2024-12-05.
  29. ^ "1110032F04Rik RIKEN cDNA 1110032F04 gene [Mus musculus (house mouse)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  30. ^ "C3H3orf80 chromosome 3 C3orf80 homolog [Antechinus flavipes (yellow-footed antechinus)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  31. ^ "C3H3orf80 chromosome 3 C3orf80 homolog [Sarcophilus harrisii (Tasmanian devil)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  32. ^ "C7H3orf80 chromosome 7 C3orf80 homolog [Alligator mississippiensis (American alligator)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  33. ^ "C9H3orf80 chromosome 9 C3orf80 homolog [Mauremys mutica (yellowpond turtle)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  34. ^ "C11H3orf80 chromosome 11 C3orf80 homolog [Prinia subflava (tawny-flanked prinia)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  35. ^ "C3orf80 C3orf80 homolog [Gallus gallus (chicken)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  36. ^ "C10H3orf80 chromosome 10 C3orf80 homolog [Aquila chrysaetos chrysaetos] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  37. ^ "C4H3orf80 chromosome 4 C3orf80 homolog [Pseudophryne corroboree (corroboree frog)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  38. ^ "C4H3orf80 chromosome 4 C3orf80 homolog [Bufo bufo (common toad)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  39. ^ "hypothetical protein NDU88_001183 [Pleurodeles waltl] - Protein - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  40. ^ "C9H3orf80 chromosome 9 C3orf80 homolog [Rhinatrema bivittatum (two-lined caecilian)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  41. ^ "CCHR4.PART1H3orf80 chromosome chr4.part1 C3orf80 homolog [Protopterus annectens (West African lungfish)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  42. ^ "LOC102363136 uncharacterized membrane protein C3orf80 homolog [Latimeria chalumnae (coelacanth)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  43. ^ "LOC120531306 uncharacterized membrane protein C3orf80 homolog [Polypterus senegalus (gray bichir)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  44. ^ "LOC121609215 uncharacterized membrane protein C3orf80 homolog [Chelmon rostratus (copperband butterflyfish)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  45. ^ "c15h3orf80 chromosome 15 C3orf80 homolog [Danio rerio (zebrafish)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  46. ^ "LOC125457730 uncharacterized membrane protein C3orf80 homolog [Stegostoma tigrinum] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
  47. ^ "LOC103176350 uncharacterized membrane protein C3orf80 [Callorhinchus milii (elephant shark)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2024-12-05.
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