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Usp6nl USP6 N-terminal like [ Rattus norvegicus (Norway rat) ]

Gene ID: 291309, updated on 27-Nov-2024

Summary

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Official Symbol
Usp6nlprovided by RGD
Official Full Name
USP6 N-terminal likeprovided by RGD
Primary source
RGD:1311786
See related
EnsemblRapid:ENSRNOG00000017644 AllianceGenome:RGD:1311786
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable GTPase activator activity and small GTPase binding activity. Predicted to be involved in several processes, including plasma membrane to endosome transport; positive regulation of GTPase activity; and retrograde transport, plasma membrane to Golgi. Predicted to be located in plasma membrane. Predicted to be active in cytoplasmic vesicle. Orthologous to human USP6NL (USP6 N-terminal like). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Lung (RPKM 82.8), Spleen (RPKM 71.1) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Usp6nl in Genome Data Viewer
Location:
17q12.3
Exon count:
19
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (76737870..76865953, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (71828433..71956878, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (75759428..75887108, complement)

Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134482604 Neighboring gene uncharacterized LOC134482603 Neighboring gene uncharacterized LOC134482605 Neighboring gene U6 spliceosomal RNA Neighboring gene small EDRK-rich factor 2 pseudogene Neighboring gene uncharacterized LOC134482606

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Analysis of Rab GTPase-activating proteins indicates that Rab1a/b and Rab43 are important for herpes simplex virus 1 secondary envelopment. Zenner HL, et al. J Virol, 2011 Aug. PMID 21680502, Free PMC Article
  2. Analysis of GTPase-activating proteins: Rab1 and Rab43 are key Rabs required to maintain a functional Golgi complex in human cells. Haas AK, et al. J Cell Sci, 2007 Sep 1. PMID 17684057
  3. Specific Rab GTPase-activating proteins define the Shiga toxin and epidermal growth factor uptake pathways. Fuchs E, et al. J Cell Biol, 2007 Jun 18. PMID 17562788, Free PMC Article
  4. Functional dissection of Rab GTPases involved in primary cilium formation. Yoshimura S, et al. J Cell Biol, 2007 Jul 30. PMID 17646400, Free PMC Article
  5. Sequential Elution Interactome Analysis of the Mind Bomb 1 Ubiquitin Ligase Reveals a Novel Role in Dendritic Spine Outgrowth. Mertz J, et al. Mol Cell Proteomics, 2015 Jul. PMID 25931508, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables GTPase activator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables GTPase activator activity ISO
Inferred from Sequence Orthology
more info
  
enables small GTPase binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in Golgi organization ISO
Inferred from Sequence Orthology
more info
  
involved_in plasma membrane to endosome transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in plasma membrane to endosome transport ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of GTPase activity ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of Golgi organization ISO
Inferred from Sequence Orthology
more info
  
NOT involved_in regulation of cilium assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in retrograde transport, plasma membrane to Golgi ISO
Inferred from Sequence Orthology
more info
  
involved_in virion assembly IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cytoplasmic vesicle IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasmic vesicle ISO
Inferred from Sequence Orthology
more info
  
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
USP6 N-terminal-like protein

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001106120.1 → NP_001099590.1  USP6 N-terminal-like protein

    See identical proteins and their annotated locations for NP_001099590.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473990
    UniProtKB/TrEMBL
    A0A8I6GLZ6, A6JLX0, D3ZL57
    Related
    ENSRNOP00000046740.2, ENSRNOT00000046266.4
    Conserved Domains (1) summary
    smart00164
    Location:97 → 312
    TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086035.1 Reference GRCr8

    Range
    76737870..76865953 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006254233.4 → XP_006254295.1  USP6 N-terminal-like protein isoform X2

    See identical proteins and their annotated locations for XP_006254295.1

    UniProtKB/TrEMBL
    A0A8I6GLZ6, A6JLX0, D3ZL57
    Conserved Domains (1) summary
    smart00164
    Location:97 → 312
    TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

  2. XM_006254232.5 → XP_006254294.1  USP6 N-terminal-like protein isoform X1

    UniProtKB/TrEMBL
    A0A8I6A486, A0A8I6GLZ6
    Related
    ENSRNOP00000085611.1, ENSRNOT00000105956.2
    Conserved Domains (1) summary
    smart00164
    Location:114 → 329
    TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs

  3. XM_063276241.1 → XP_063132311.1  USP6 N-terminal-like protein isoform X4

  4. XM_006254236.5 → XP_006254298.1  USP6 N-terminal-like protein isoform X4

    UniProtKB/TrEMBL
    A0A8I6GLZ6
    Conserved Domains (2) summary
    smart00164
    Location:18 → 233
    TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs
    PHA03307
    Location:287 → 642
    PHA03307; transcriptional regulator ICP4; Provisional

  5. XM_039095538.2 → XP_038951466.1  USP6 N-terminal-like protein isoform X3

    UniProtKB/TrEMBL
    A0A8I6GH29, A0A8I6GLZ6
    Related
    ENSRNOP00000096234.2, ENSRNOT00000103406.2
    Conserved Domains (2) summary
    smart00164
    Location:41 → 256
    TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs
    PHA03307
    Location:310 → 665
    PHA03307; transcriptional regulator ICP4; Provisional
Nucleotide Protein Strain
Heading Accession and Version

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