C11orf16

Last updated
C11orf16
Identifiers
Aliases C11orf16 , chromosome 11 open reading frame 16
External IDs MGI: 1928824 HomoloGene: 49631 GeneCards: C11orf16
Orthologs
SpeciesHumanMouse
Entrez
Ensembl
UniProt
RefSeq (mRNA)

NM_020643

NM_001040700
NM_020609

RefSeq (protein)

NP_065694

NP_001035790

Location (UCSC) Chr 11: 8.92 – 8.93 Mb Chr 7: 109.31 – 109.32 Mb
PubMed search [3] [4]
Wikidata
View/Edit Human View/Edit Mouse

Gene C11orf16, chromosome 11 open reading frame 16, is a protein in humans that is encoded by the C11orf16 gene. [5] [6] It has 7 exons, and the size of 467 amino acids.

Contents

Gene

Location

The gene C11orf16 is located on chromosome 11(p15.4), starting at 8,920,076bp and ending at 8,933,006bp.

C11orf16.png

Gene neighborhood

Gene ASCL3 and AKIP1 are the neighbor genes of C11orf16 on chromosome 11.

Expression

Human

The gene does not have high expression throughout the body tissues. The percentile rank within the sample are higher in pancreas, ovary, and appendix.

C11orf16 expression in human body sites extracted from NCBI GEO profile Expression of C11orf16.png
C11orf16 expression in human body sites extracted from NCBI GEO profile

Mouse brain

Even though the gene does not have a significant high expression in the mouse brain, it is most expressed in midbrain, isocortex, olfactory areas, and medulla.

Transcription factors

Some transcription factors that have the higher matrix similarity are Kruppel-like zinc finger protein 219, zinc finger protein 263, ZKSCAN12 (zinc finger protein with KRAB and SCAN domains 12), chorion-specific transcription factor GCMa, and Ras-responsive element binding protein 1. [7]

mRNA

Isoform

The predicted C11orf16 transcript variant X1 is 2386bp long and has NCBI accession number of XM_017018013.1. [8]

Homology

Paralogs

No paralogs were found for the C11orf16 gene through NCBI BLAST.

Orthologs

DescriptionCommon nameNCBI accession IDQuery coverE valueIdentityDate of divergence (MYA)
Homo sapiens HumanNP_065694.2100 %0100%N/A
Pongo abelii Sumatran orangutanPNJ2462884%095%15.2
Aotus nancymaae Nancy Ma's night monkeyXP_012312127.188%084%42.6
Chinchilla lanigera Long-tailed chinchillaXP_013367496.197%068%88
Equus przewalskii Przewalski's horseXP_008512245.198%073%94
Cervus elaphus hippelaphus Central European red deerOWK17675.199%067%94
Hipposideros armiger Great roundleaf batXP_019511755.199%065%94
Neomonachus schauinslandi Hawaiian monk sealXP_021541375.199%066%94
Lipotes vexillifer BaijiXP_007459933.198%068%94
Myotis brandtii Brandt's batXP_005874017.198%1e-17467%94
Chelonia mydas Green sea turtleXP_007057171.183%1e-5737%320
Balearica regulorum gibbericeps Grey crowned craneXP_010311948.170%6e-540%320

Conservation

The gene C11orf16 is conserved in many animal species including mammals, avians, and reptiles.

The multiple sequence alignment shows the conservation of the gene C11orf16 1.BOX.6735.9907.pdf
The multiple sequence alignment shows the conservation of the gene C11orf16

Protein

Molecular weight

The predicted molecular weight of the protein encoded by C11orf16 is 51 kilodaltons. [9] [10]

Domains and motifs

Several protein domains and motifs were found including CHD5-like protein, tyrosine kinase phosphorylation site, protein kinase C phosphorylation site, N-myristoylation site, casein kinase II phosphorylation site, and cGMP-dependent protein kinase phosphorylation site. [11] The picture indicates the location of the motifs.

The predicted motifs of C11orf16 are shown in colors to the corresponding amino acids PROTTER-motifs.png
The predicted motifs of C11orf16 are shown in colors to the corresponding amino acids

Secondary structure

The protein is predicted to be made up with 21.2% of alpha helix, 15.2% of extended strand, and 63% of random coil.

The secondary structure of protein C11orf16 Secondary structure of C11orf16.png
The secondary structure of protein C11orf16

Post-translational modifications

No transmembrane helices, [12] potential GPI-modification sites, or TM-proteins were found. There were seven predicted sumoylation sites, [13] multiple phosporylation sites with most of them being unspecified,[ citation needed ] and nine glycosylation sites. [14]

Post translational modification of protein C11orf16 PROTTER-PTM.png
Post translational modification of protein C11orf16

Subcellular localization predictor

The protein is predicted to be localized to the nucleus with the probability of 47.8%; mitochondria with the probability of 26.1%. [16]

Protein interaction

Proteins C1orf105 (Chromosome 1 open reading frame 105), PWWP2A, and SMYD1(SET and MYND domain containing 1) were found to be interacting with C11orf16. [17]

Clinical significance

Disease association

Protein coded by C11orf16 gene is also predicted to have 19.61% sequence identity to tumor suppressor p53-binding protein suggesting that this gene might be involved with tumor suppressing process. [18]

Related Research Articles

<span class="mw-page-title-main">Chromosome 3</span> Human chromosome

Chromosome 3 is one of the 23 pairs of chromosomes in humans. People normally have two copies of this chromosome. Chromosome 3 spans 201 million base pairs and represents about 6.5 percent of the total DNA in cells.

<span class="mw-page-title-main">RNF38</span> Protein-coding gene in the species Homo sapiens

RING finger protein 38 is a protein that in humans is encoded by the RNF38 gene.

<span class="mw-page-title-main">ICK (gene)</span> Protein-coding gene in the species Homo sapiens

Serine/threonine-protein kinase, Intestinal cell kinase or ICK is an enzyme that in humans is encoded by the ICK gene.

<span class="mw-page-title-main">ZNF44</span> Protein-coding gene in the species Homo sapiens

Zinc finger protein 44 is a protein that in humans is encoded by the ZNF44 gene.

<span class="mw-page-title-main">ZNF19</span> Protein-coding gene in the species Homo sapiens

Zinc finger protein 19 is a protein that in humans is encoded by the ZNF19 gene.

<span class="mw-page-title-main">SUHW4</span> Protein-coding gene in the species Homo sapiens

Zinc finger protein 280D, also known as Suppressor Of Hairy Wing Homolog 4, SUWH4, Zinc Finger Protein 634, ZNF634, or KIAA1584, is a protein that in humans is encoded by the ZNF280D gene located on chromosome 15q21.3.

<span class="mw-page-title-main">C20orf27</span> Protein-coding gene in the species Homo sapiens

UPF0687 protein C20orf27 is a protein that in humans is encoded by the C20orf27 gene. It is expressed in the majority of the human tissues. One study on this protein revealed its role in regulating cell cycle, apoptosis, and tumorigenesis via promoting the activation of NFĸB pathway.

<span class="mw-page-title-main">IRX1</span> Protein-coding gene in the species Homo sapiens

Iroquois-class homeodomain protein IRX-1, also known as Iroquois homeobox protein 1, is a protein that in humans is encoded by the IRX1 gene. All members of the Iroquois (IRO) family of proteins share two highly conserved features, encoding both a homeodomain and a characteristic IRO sequence motif. Members of this family are known to play numerous roles in early embryo patterning. IRX1 has also been shown to act as a tumor suppressor gene in several forms of cancer.

<span class="mw-page-title-main">TMEM242</span> Protein-coding gene in the species Homo sapiens

Transmembrane protein 242 (TMEM242) is a protein that in humans is encoded by the TMEM242 gene. The tmem242 gene is located on chromosome 6, on the long arm, in band 2 section 5.3. This protein is also commonly called C6orf35, BM033, and UPF0463 Transmembrane Protein C6orf35. The tmem242 gene is 35,238 base pairs long, and the protein is 141 amino acids in length. The tmem242 gene contains 4 exons. The function of this protein is not well understood by the scientific community. This protein contains a DUF1358 domain.

<span class="mw-page-title-main">ZNF184</span> Protein-coding gene in the species Homo sapiens

Zinc finger protein 184, also known as ZNF184, is a protein that in humans is encoded by the ZNF184 gene on chromosome 6. It was first identified by Goldwurm et al. in 1996.

<span class="mw-page-title-main">WWC2</span> Protein-coding gene in the species Homo sapiens

WW and C2 domain containing 2 (WWC2) is a protein that in humans is encoded by the WWC2 gene (4q35.1). Though function of WWC2 remains unknown, it has been predicted that WWC2 may play a role in cancer.

<span class="mw-page-title-main">Zinc finger protein 226</span> Protein found in humans

Zinc finger protein 226 is a protein that in humans is encoded by the ZNF226 gene.

<span class="mw-page-title-main">C8orf48</span> Protein-coding gene in the species Homo sapiens

C8orf48 is a protein that in humans is encoded by the C8orf48 gene. C8orf48 is a nuclear protein specifically predicted to be located in the nuclear lamina. C8orf48 has been found to interact with proteins that are involved in the regulation of various cellular responses like gene expression, protein secretion, cell proliferation, and inflammatory responses. This protein has been linked to breast cancer and papillary thyroid carcinoma.

<span class="mw-page-title-main">C3orf67</span> Human gene

Chromosome 3 open reading frame 67 or C3orf67 is a protein that in humans is encoded by the gene C3orf67. The function of C3orf67 is not yet fully understood.

<span class="mw-page-title-main">C8orf34</span> Gene of the species Homo sapiens

C8orf34 is a protein that, in Homo sapiens, is encoded by the C8orf34 gene. Aliases for C8orf34 include vestibule-1 or VEST-1. Within the cell, C8orf34 is localized to the nucleus and nucleoli where it may play a role in the regulation of gene expression as well as the cell cycle.

<span class="mw-page-title-main">C1orf94</span> Protein-coding gene in the species Homo sapiens

Chromosome 1 Opening Reading Frame 94 or C1orf94 is a protein in human coded by the C1orf94 gene. The function of this protein is still poorly understood.

<span class="mw-page-title-main">C11orf98</span> Protein-coding gene in the species Homo sapiens

C11orf98 is a protein-encoding gene on chromosome 11 in humans of unknown function. It is otherwise known as c11orf48. The gene spans the chromosomal locus from 62,662,817-62,665,210. There are 4 exons. It spans across 2,394 base pairs of DNA and produces an mRNA that is 646 base pairs long.

<span class="mw-page-title-main">C12orf29</span> Protein-coding gene in humans

C12orf29 is a protein that in humans is encoded by chromosome 12 open reading frame 29. The gene is ubiquitously expressed in various tissues. The protein has 325 amino acids. The biological process of C12orf29 has been annotated as hematopoietic progenitor cell differentiation. The molecular and cellular functions of C12orf29 gene have not yet well understood by the scientific community.

<span class="mw-page-title-main">C12orf50</span> Protein-coding gene in humans

Chromosome 12 Open Reading Frame 50 (C12orf50) is a protein-encoding gene which in humans encodes for the C12orf50 protein. The accession id for this gene is NM_152589. The location of C12orf50 is 12q21.32. It covers 55.42 kb, from 88429231 to 88373811, on the reverse strand. Some of the neighboring genes to C12orf50 are RPS4XP15, LOC107984542, and C12orf29. RPS4XP15 is upstream C12orf50 and is on the same strand. LOC107984542 and C12orf29 are both downstream. LOC107984542 is on the opposite strand while C12orf29 is on the same strand. C12orf50 has six isoforms. This page is focusing on isoform X1. C12orf50 isoform X1 is 1711 nucleotides long and has a protein with a length of 414 aa.

<span class="mw-page-title-main">C2orf80</span> Gene

C2orf80 is a protein that in humans is encoded by the c2orf80 gene. The gene c2orf80 also goes by the alias GONDA1. In humans, c2orf80 is exclusively expressed in the brain. While relatively little is known about the function of c2orf80, medical studies have shown a strong association between variations in c2orf80 and IDH-mutant gliomas, 46,XY gonadal dysgenesis, and a possible association with blood pressure.

References

  1. 1 2 3 GRCh38: Ensembl release 89: ENSG00000176029 - Ensembl, May 2017
  2. 1 2 3 GRCm38: Ensembl release 89: ENSMUSG00000031022 - 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. Amid C, Bahr A, Mujica A, Sampson N, Bikar SE, Winterpacht A, Zabel B, Hankeln T, Schmidt ER (Aug 2001). "Comparative genomic sequencing reveals a strikingly similar architecture of a conserved syntenic region on human chromosome 11p15.3 (including gene ST5) and mouse chromosome 7". Cytogenet Cell Genet. 93 (3–4): 284–90. doi:10.1159/000056999. PMID   11528127. S2CID   27611036.
  6. "Entrez Gene: C11orf16 chromosome 11 open reading frame 16".
  7. "Genomatix". Archived from the original on 2021-08-17. Retrieved 2018-05-06.
  8. "NCBI Nucleotide". 22 November 2021.
  9. "Expasy".
  10. "Sigma Antibodies".
  11. "Motif Scan".
  12. "TMHMM".
  13. "SUMOplot".
  14. "YingOYang".
  15. "Protter".
  16. "PSORTII".[ permanent dead link ]
  17. "String".
  18. "SWISS-MODEL". Archived from the original on 2018-05-07. Retrieved 2018-05-06.

Further reading