Jump to content

C7orf25

From Wikipedia, the free encyclopedia
(Redirected from C7orf25 protein UPF0415)
C7orf25
Identifiers
AliasesC7orf25, C7orf25 protein UPF0415, chromosome 7 open reading frame 25
External IDsMGI: 2145422; HomoloGene: 11439; GeneCards: C7orf25; OMA:C7orf25 - orthologs
Orthologs
SpeciesHumanMouse
Entrez
Ensembl
UniProt
RefSeq (mRNA)

NM_001099858
NM_024054
NM_001363436

NM_001104646
NM_134067

RefSeq (protein)

NP_001093328
NP_076959
NP_001350365

NP_001098116
NP_598828

Location (UCSC)Chr 7: 42.91 – 42.91 MbChr 13: 14.8 – 14.81 Mb
PubMed search[3][4]
Wikidata
View/Edit HumanView/Edit Mouse

C7orf25 protein UPF0415 (UPF0415) is a protein encoded on chromosome 7, in open reading frame 25 (C7orf25) and are located at domain of unknown function 1308. C7orf25 is located at the minus strand and encodes 12 proteins, one of them being UPF0415. This protein is believed to be active in the proteosome pathway. C7orf25 protein UPF0415 is not a transmembrane protein and has no signal peptide. UPF0415 has two isoforms, Q9BPX7-1 and Q9BPX7-2. Both consists of two exons that are both highly conserved among vertebrates.

Background information

[edit]
Gene Size Protein Size # of exons Promoter Sequence Signal Peptide Molecular Weight Chromosome position Protein Isoelectric point
1844 bp 421 aa 2 ~600bp No 46.45 kDa [5] 7p14 5.76 [5]

Gene neighborhood

[edit]

C7orf25 is an open reading frame that encodes 12 proteins. Most of these are of unknown function. One of these proteins is UPF0415 and another is PSMA2 which is also functional in the proteosome pathway.[6] Other genes located near C7orf25 protein UPF0415 are TCP1P1, HECW1, MIR3943 and MRPL32.

Predicted mRNA features

[edit]

Promoter

[edit]

The promoter for the C7orf25 protein UPF0415 gene spans 600 base pairs from 42,951,804 to 42,952,404 with a predicted transcriptional start site that encodes a sequence of 1844 base pairs. The sequence spans from 42,908,726 to 42,912,090.[7] The promoter region and beginning of the C7orf25 gene (20,008,263 to 20,009,250) is not conserved past primates. This region was used to determine transcription factor interactions.

Transcription factors

[edit]

Some of the main transcription factors that bind to the promoter are listed below.[8]

Reference Detailed Family Information Start (nucleotide) End (nucleotide) Strand
XCPE Activator-, mediator- and TBP-dependent core promoter element for RNA polymerase II transcription from TATA-less promoters 360 370 -
MIZ1 Myc-interacting Zn finger protein 1 120 130 -
PLAG1 Pleomorphic adenoma gene 160 182 -
FOX proteins Fork head domain factors 35 51 +
E2FF E2F-myc activator/cell cycle regulator 357 373 -
MZF1 Myeloid zinc finger 1 factors 497 507 +
HAND Twist subfamily of class B bHLH transcription factors 335 355 -
RU49 Zinc finger transcription factor RU49, zinc finger proliferation 1 - Zipro1 651 657 -
NF-κB Nuclear factor kappa B/c-rel 219 233 -
E2FF E2F-myc activator/cell cycle regulator 492 508 +
SP1F GC-Box factors SP1/GC 490 506 +
IKRS Ikaros zinc finger family 64 76 +
STAT1 Signal transducer and activator of transcription 409 427 -
RBP2 Retinoblastoma-binding proteins with demethylase activity 538 546 -
YY1F Activator/repressor binding to transcription initiation site 553 575 -
SP1F GC-Box factors SP1/GC 359 375 -
HSF Heat shock factors 240 264 -
BPTF Bromodomain and PHD domain transcription factors 423 433 +
ZNF35 Zinc finger protein ZNF35 309 321 +
ETSF Human and murine ETS1 factors 235 255 +

Function and expression

[edit]

C7orf25 protein UPF0415 is believed to be active in ATP dependent protein breakdown in the proteosome pathway. It is expressed ubiquitously in humans.[9]

Homology

[edit]

UPF0415 protein C7orf25 has one paralog which is FLJ18411.[10] UPF0415 is also highly conserved in vertebrates. The following table shows a small selection of orthologs found using BLAST and BLAT and their identity to C7orf25 protein UPF0415.

Genus and species Accession number Similarity (aa)
Homo sapiens NM_001099858 -
Bos taurus (Cow) NM_001076140.1 95%
Falco cherrug (Falcon) XM_005446213.1 78%
Xenopus laevis (Frog) XM_005014944.1 73%

Predicted protein features

[edit]

Post Translational Modifications

[edit]

UPF0415 protein C7orf25 is not a transmembrane protein as it has no transmembrane domains. C7orf25 protein UPF0415 has multiple phosphorylation which are believed to be responsible in protein activation.[11]

Multiple stem loops have been predicted in both 3` and 5`UTR and these are believed to be functional in gene transcription.[12] 3`UTR and 5`UTR stem loops

Interactions

[edit]

Other proteins that are known to interact with UPF0415 protein C7orf25 are FRA10AC1, FLJ23825 and TUBB (tubulin, beta class I) and only TUBB is associated with proteosome activity.

Conceptual presentation

[edit]

All post transnational modifications, genetic or proteomic factors that are relevant for UPF0415 protein C7orf25 transcription and regulation, mentioned above, are annotated in the conceptual translation.

Conceptual translation of C7orf25

C7orf25

[edit]

C7orf25 encodes 12 different transcripts. Two of these transcripts are (PSMA2 and UPF0415). No specific phenotypes or polymorphisms are yet to be related to mutations in C7orf25. This suggests that this reading frame is important for survival in vertebrates. The picture below shows all predicted transcripts encoded in C7orf25.[13]

Transcript variants C7orf25

References

[edit]
  1. ^ a b c GRCh38: Ensembl release 89: ENSG00000136197Ensembl, May 2017
  2. ^ a b c GRCm38: Ensembl release 89: ENSMUSG00000039182Ensembl, 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 Kozlowski LP (October 2016). "IPC - Isoelectric Point Calculator". Biology Direct. 11 (1): 55. doi:10.1186/s13062-016-0159-9. PMC 5075173. PMID 27769290.
  6. ^ "Gene_neighborhood".
  7. ^ "El Durado (Genomatix)". Archived from the original on 2021-12-02. Retrieved 2014-05-10.
  8. ^ "Genomatrix_tool_Eldorado". Archived from the original on 2021-12-02. Retrieved 2014-05-10.
  9. ^ Gazitua R, Wilson K, Bistrian BR, Blackburn GL (August 1979). "Factors determining peripheral vein tolerance to amino acid infusions". Archives of Surgery. 114 (8): 897–900. doi:10.1001/archsurg.1979.01370320029005. PMID 111645.
  10. ^ "FLJ18411". 12 January 2008.
  11. ^ Blom N, Gammeltoft S, Brunak S (December 1999). "Sequence and structure-based prediction of eukaryotic protein phosphorylation sites". Journal of Molecular Biology. 294 (5): 1351–62. doi:10.1006/jmbi.1999.3310. PMID 10600390. Archived from the original on 2021-07-09. Retrieved 2014-05-10.
  12. ^ Zuker, M. (1 July 2003). "Mfold web server for nucleic acid folding and hybridization prediction". Nucleic Acids Research. 31 (13): 3406–3415. CiteSeerX 10.1.1.138.4837. doi:10.1093/nar/gkg595. PMC 169194. PMID 12824337.
  13. ^ Thierry-Mieg D, Thierry-Mieg J (2006). "AceView: a comprehensive cDNA-supported gene and transcripts annotation". Genome Biology. 7 (Suppl 1): S12.1–14. doi:10.1186/gb-2006-7-s1-s12. PMC 1810549. PMID 16925834.