C6orf62: Difference between revisions

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{{#invoke:Infobox_gene|getTemplateData|QID=Q18047079}}
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'''Chromosome 6 open reading frame 62 (C6orf62),''' also known as X-trans-activated protein 12 (XTP12),<ref>{{Cite web|url=http://www.genecards.org/cgi-bin/carddisp.pl?gene=C6orf62|title=C6orf62 Gene - GeneCards {{!}} CF062 Protein {{!}} CF062 Antibody|last=Database|first=GeneCards Human Gene|website=www.genecards.org|access-date=2017-02-21}}</ref> is a gene that encodes a protein of the same name. The encoded protein is predicted to have a subcellular location within the cytosol.<ref name=":0">{{Cite web|url=http://www.proteinatlas.org/ENSG00000112308-C6orf62/tissue|title=Tissue expression of C6orf62 - Summary - The Human Protein Atlas|website=www.proteinatlas.org|access-date=2017-05-08}}</ref>
'''Chromosome 6 open reading frame 62 (C6orf62),''' also known as X-trans-activated protein 12 (XTP12),<ref>{{Cite web|url=https://www.genecards.org/cgi-bin/carddisp.pl?gene=C6orf62|title=C6orf62 Gene - GeneCards {{!}} CF062 Protein {{!}} CF062 Antibody|last=Database|first=GeneCards Human Gene|website=www.genecards.org|access-date=2017-02-21}}</ref> is a gene that encodes a protein of the same name. The encoded protein is predicted to have a subcellular location within the cytosol.<ref name=":0">{{Cite web|url=http://www.proteinatlas.org/ENSG00000112308-C6orf62/tissue|title=Tissue expression of C6orf62 - Summary - The Human Protein Atlas|website=www.proteinatlas.org|access-date=2017-05-08}}</ref>


== Gene and Transcript ==
== Gene and Transcript ==
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== Protein ==
== Protein ==
The main transcript is 229 amino acids long and is encoded from 5 exonic regions. There exists two transcript variants that are 200 amino acids and 160 amino acids long. There is a [[domain of unknown function]] (DUF4566) present in all three variants and spans positions 1-226 on the main transcript.<ref>{{Cite web|url=https://www.ncbi.nlm.nih.gov/gene/81688|title=C6orf62 chromosome 6 open reading frame 62 [Homo sapiens (human)] - Gene - NCBI|website=www.ncbi.nlm.nih.gov|access-date=2017-05-08}}</ref> The molecular weight of C6orf62 is 27.1 kDa and its [[isoelectric point]] is at a pH of 9.24.<ref>{{Cite web|url=http://seqtool.sdsc.edu/CGI/BW.cgi#!|title=SAPS - SDSC Bio Workbench|last=Volker|first=Brendel|date=2006|website=SDSC Biology Workbench|archive-url=|archive-date=|dead-url=|access-date=2017-05-01}}</ref> It is located subcellularly localized throughout the cytosol.<ref name=":0" />
The main transcript is 229 amino acids long and is encoded from 5 exonic regions. There exists two transcript variants that are 200 amino acids and 160 amino acids long. There is a [[domain of unknown function]] (DUF4566) present in all three variants and spans positions 1-226 on the main transcript.<ref>{{Cite web|url=https://www.ncbi.nlm.nih.gov/gene/81688|title=C6orf62 chromosome 6 open reading frame 62 [Homo sapiens (human)] - Gene - NCBI|website=www.ncbi.nlm.nih.gov|access-date=2017-05-08}}</ref> The molecular weight of C6orf62 is 27.1 kDa and its [[isoelectric point]] is at a pH of 9.24.<ref>{{Cite web|url=http://seqtool.sdsc.edu/CGI/BW.cgi#!|title=SAPS - SDSC Bio Workbench|last=Volker|first=Brendel|date=2006|website=SDSC Biology Workbench|archive-url=|archive-date=|dead-url=|access-date=2017-05-01}}{{Dead link|date=November 2018 |bot=InternetArchiveBot |fix-attempted=yes }}</ref> It is located subcellularly localized throughout the cytosol.<ref name=":0" />


=== Protein Interactions ===
=== Protein Interactions ===
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|-
|-
|[[NADH]]
|[[NADH]]
|predicted through [[yeast two-hybrid screening]].<ref>{{Cite web|url=http://www.ebi.ac.uk/intact/interactions?conversationContext=1|title=http://www.ebi.ac.uk/intact/interactions?conversationContext=1|last=IntAct|website=www.ebi.ac.uk|language=en|access-date=2017-05-08}}</ref>
|predicted through [[yeast two-hybrid screening]].<ref>{{cite web | url = https://www.ebi.ac.uk/intact/interactions?conversationContext=3&query=C6orf62 | title = 1 binary interaction found for search term C6orf62 | work = IntAct Molecular Interaction Database | publisher = EMBL-EBI | access-date = 2018-08-25 }}</ref>
 
|}
|}


== Expression ==
== Expression ==
C6orf62 is broadly expressed within the human body, however, it's protein abundance is not high.<ref>{{Cite web|url=http://pax-db.org/protein/1856819|title=C6orf62 protein abundance in PaxDb|website=pax-db.org|language=en|access-date=2017-05-08}}</ref> It is more heavily expressed in the [[gallbladder]] and [[Testicle|testis]], but it is not predicted to be expressed in the [[Smooth muscle tissue|smooth muscle]], [[lymph node]]s, the [[spleen]], [[Ovary|ovarie]]<nowiki/>s, [[adipose tissue]], and [[soft tissue]].  
C6orf62 is broadly expressed within the human body, however, its protein abundance is not high.<ref>{{Cite web|url=http://pax-db.org/protein/1856819|title=C6orf62 protein abundance in PaxDb|website=pax-db.org|language=en|access-date=2017-05-08}}</ref> It is more heavily expressed in the [[gallbladder]] and [[Testicle|testis]], but it is not predicted to be expressed in the [[Smooth muscle tissue|smooth muscle]], [[lymph node]]s, the [[spleen]], [[Ovary|ovarie]]<nowiki/>s, [[adipose tissue]], and [[soft tissue]].  
<!-- Deleted image removed: [[File:C6orf62expression.PNG|alt=Expression of C6orf62 protein in human tissue.|center|600x600px|thumb|Expression of C6orf62 in human tissue.]] -->
<!-- Deleted image removed: [[File:C6orf62expression.PNG|alt=Expression of C6orf62 protein in human tissue.|center|600x600px|thumb|Expression of C6orf62 in human tissue.]] -->


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|Sinocyclocheilus
|Sinocyclocheilus
|rhinocerous
|rhinoceros
|Golden-lined Barbell
|Golden-lined Barbell
|435
|435

Latest revision as of 12:36, 15 November 2018

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Identifiers
Aliases
External IDsGeneCards: [1]
Orthologs
SpeciesHumanMouse
Entrez

n/a

n/a

Ensembl

n/a

n/a

UniProt

n/a

n/a

RefSeq (mRNA)

n/a

n/a

RefSeq (protein)

n/a

n/a

Location (UCSC)n/an/a
PubMed searchn/an/a
Wikidata
View/Edit Human

Chromosome 6 open reading frame 62 (C6orf62), also known as X-trans-activated protein 12 (XTP12),[1] is a gene that encodes a protein of the same name. The encoded protein is predicted to have a subcellular location within the cytosol.[2]

Gene and Transcript

In the DNA, C6orf62 is 12,529 base pairs long and is located at 6q22.3.[3] It is located on chromosome 6 on position 22.3 (6q22.3). The mature mRNA sequence is 2498 base-pairs long with 5 exons and 4 intronic regions that translates a protein that is 229 amino acids long and two predicted isoforms of 160 amino acids and 200 amino acids.[4][5]


Protein

The main transcript is 229 amino acids long and is encoded from 5 exonic regions. There exists two transcript variants that are 200 amino acids and 160 amino acids long. There is a domain of unknown function (DUF4566) present in all three variants and spans positions 1-226 on the main transcript.[6] The molecular weight of C6orf62 is 27.1 kDa and its isoelectric point is at a pH of 9.24.[7] It is located subcellularly localized throughout the cytosol.[2]

Protein Interactions

Protein
ELAVL1 predicted through affinity capture-RNA.[8]
PVRL4 predicted through affinity capture-mass spectroscopy.[8]
NADH predicted through yeast two-hybrid screening.[9]

Expression

C6orf62 is broadly expressed within the human body, however, its protein abundance is not high.[10] It is more heavily expressed in the gallbladder and testis, but it is not predicted to be expressed in the smooth muscle, lymph nodes, the spleen, ovaries, adipose tissue, and soft tissue.

Homology

C6orf62 is highly conserved among vertebrates and has orthologs found in invertebrates.

Orthologs in Select Mammals[11]

Genus Species Common Name Date of divergence (MYA) RefSeq AA Length % Identity % Similarity
Pongo abelii Sumatran Orangutan 15.2 NP_001126883.1 232 99 99
Ictidomys tridecemlineatus Ground Squirrel 88 XP_005337081.1 231 99 98
Tupaia chinensis Treeshrew 85 XP_006162754.1 267 84 98
Rattus norvegicus Brown Rat 88 NP_001017510.1 232 99 98

Orthologs in Select Ray-Finned Fish[11]

Genus Species Common Name Date of divergence (MYA) RefSeq AA Length % Identity % Similarity
Salmo salar Salmon 435 XP_014034327.1 233 82 93
Sinocyclocheilus rhinoceros Golden-lined Barbell 435 XP_016388718.1 230 87 94
Hippocampus comes Seahorse 435 XP_019729847.1 234 80 91

Orthologs in Select Amphibians[11]

Genus Species Common Name Date of divergence (MYA) RefSeq AA Length % Identity % Similarity
Nanorana parkeri High Himalaya Frog 353 XP_018411819.1 232 95 97
Xenopus trpocalis African Clawed Frog 353 NP_001120278.1 232 93 98

Orthologs in Select Reptiles[11]

Genus Species Common Name Date of divergence (MYA) RefSeq AA Length % Identity % Similarity
Chrysemys picta belli Painted Turtle 320 XP_005281462.1 233 97 98
Python vbivittatus Burmese Python 320 XP_007521998.1 233 96 99
Chelonia mydas Green Sea Turtle 320 XP_007060449.1 231 97 98
Alligator sinensis Chinese Alligator 320 XP_006034488.1 232 98 99

Orthologs in Select Birds[11]

Genus Species Common Name Date of divergence (MYA) RefSeq AA Length % Identity % Similarity
Tauraco erythrolophus Red-crested Tauraco 320 XP_009991398.1 232 97
Taeniopygia guttata Zebra Finch 320 XP_002194166.1 232 98
Manacus vitellinus Gold Marked Manakin 320 XP_017925511.1 241 98

Orthologs in Select Invertebrates[11]

Genus Species Common Name Date of divergence (MYA) RefSeq AA Length % Identity % Similarity
Ciona intestinalis Sea Squirt 677 XP_002119736.1 233 38 62
Crassostrea gigas Pacific Oyster 758 XP_011438527.1 231 62 80
Hellobdella robusta Glossiphoniidae Leech 758 XP_009016977.1 264 35 51
Octopus bimaculoides Two-Spot Octopus 758 XP_014780369.1 197 60 79
Saccoglossus kowalevskii Acorn Worm 627 XP_002741666.1 230 66 83

References

  1. ↑ Database, GeneCards Human Gene. "C6orf62 Gene - GeneCards | CF062 Protein | CF062 Antibody". www.genecards.org. Retrieved 2017-02-21.
  2. ↑ 2.0 2.1 "Tissue expression of C6orf62 - Summary - The Human Protein Atlas". www.proteinatlas.org. Retrieved 2017-05-08.
  3. ↑ Kent, WJ; Sugnet, CW; Furey, TS; Roskin, KM; Pringle, TH; Zahler, AM; Haussler, D (2002). "UCSC Genome Browser". UCSC Genome Browser. Retrieved 2017-02-20.
  4. ↑ "PREDICTED: uncharacterized protein C6orf62 isoform X1 [Homo sapiens] - Protein - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2017-05-08.
  5. ↑ "PREDICTED: uncharacterized protein C6orf62 isoform X2 [Homo sapiens] - Protein - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2017-05-08.
  6. ↑ "C6orf62 chromosome 6 open reading frame 62 [Homo sapiens (human)] - Gene - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2017-05-08.
  7. ↑ Volker, Brendel (2006). "SAPS - SDSC Bio Workbench". SDSC Biology Workbench. Retrieved 2017-05-01.[permanent dead link]
  8. ↑ 8.0 8.1 Lab, Mike Tyers. "C6orf62 (RP1-30M3.4) Result Summary | BioGRID". thebiogrid.org. Retrieved 2017-05-08.
  9. ↑ "1 binary interaction found for search term C6orf62". IntAct Molecular Interaction Database. EMBL-EBI. Retrieved 2018-08-25.
  10. ↑ "C6orf62 protein abundance in PaxDb". pax-db.org. Retrieved 2017-05-08.
  11. ↑ 11.0 11.1 11.2 11.3 11.4 11.5 "NCBI - Basic Local Alignment Search Tool". NCBI.
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