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NUGGC nuclear GTPase, germinal center associated [ Homo sapiens (human) ]

Gene ID: 389643, updated on 2-Nov-2024

Summary

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Official Symbol
NUGGCprovided by HGNC
Official Full Name
nuclear GTPase, germinal center associatedprovided by HGNC
Primary source
HGNC:HGNC:33550
See related
Ensembl:ENSG00000189233 MIM:619088; AllianceGenome:HGNC:33550
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SLIPGC; C8orf80; SLIP-GC; HMFN0672
Summary
Enables GTPase activity. Involved in cellular response to lipopolysaccharide; negative regulation of apoptotic process; and regulation of nuclear cell cycle DNA replication. Predicted to be located in nuclear speck. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in lymph node (RPKM 5.9), liver (RPKM 3.6) and 9 other tissues See more
Orthologs
mouse all
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Genomic context

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See NUGGC in Genome Data Viewer
Location:
8p21.1
Exon count:
20
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (28021964..28083936, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (28300186..28362146, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (27879481..27941453, complement)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:27750341-27750927 Neighboring gene VISTA enhancer hs1741 Neighboring gene scavenger receptor class A member 5 Neighboring gene uncharacterized LOC105379342 Neighboring gene microRNA 4287 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:27806885-27807386 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:27807387-27807886 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:27834121-27835005 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:27918038-27918203 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:27920879-27921378 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27159 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27160 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:27950237-27950790 Neighboring gene MPRA-validated peak6972 silencer Neighboring gene elongator acetyltransferase complex subunit 3 Neighboring gene uncharacterized LOC105379343 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:28042753-28043255 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:28049121-28049873 Neighboring gene delta 4-desaturase, sphingolipid 1 pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Altered pattern of immunoglobulin hypermutation in mice deficient in Slip-GC protein. Richter K, et al. J Biol Chem, 2012 Sep 14. PMID 22833677, Free PMC Article
  2. Genome-wide association study of increasing suicidal ideation during antidepressant treatment in the GENDEP project. Perroud N, et al. Pharmacogenomics J, 2012 Feb. PMID 20877300
  3. Speckled-like pattern in the germinal center (SLIP-GC), a nuclear GTPase expressed in activation-induced deaminase-expressing lymphomas and germinal center B cells. Richter K, et al. J Biol Chem, 2009 Oct 30. PMID 19734146, Free PMC Article
  4. Association of genome-wide variation with highly sensitive cardiac troponin-T levels in European Americans and Blacks: a meta-analysis from atherosclerosis risk in communities and cardiovascular health studies. Yu B, et al. Circ Cardiovasc Genet, 2013 Feb. PMID 23247143, Free PMC Article
  5. Expression profiling and differential screening between hepatoblastomas and the corresponding normal livers: identification of high expression of the PLK1 oncogene as a poor-prognostic indicator of hepatoblastomas. Yamada S, et al. Oncogene, 2004 Aug 5. PMID 15221005

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
  2. SLIP-GC is a replication-related protein in germinal center B cells whose reduction is toxic to cells through an AICDA-dependent mechanism.
    Title: Speckled-like pattern in the germinal center (SLIP-GC), a nuclear GTPase expressed in activation-induced deaminase-expressing lymphomas and germinal center B cells.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Association of genome-wide variation with highly sensitive cardiac troponin-T levels in European Americans and Blacks: a meta-analysis from atherosclerosis risk in communities and cardiovascular health studies.
EBI GWAS Catalog
Genome-wide association study of increasing suicidal ideation during antidepressant treatment in the GENDEP project.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ26413

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables GTP binding IEA
Inferred from Electronic Annotation
more info
  
enables GTPase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables GTPase activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in cellular response to lipopolysaccharide IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of apoptotic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of nuclear cell cycle DNA replication IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in nuclear speck IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
nuclear GTPase SLIP-GC
Names
GTPase SLIP-GC
speckled-like pattern in the germinal center

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_001010906.2 → NP_001010906.1  nuclear GTPase SLIP-GC

    See identical proteins and their annotated locations for NP_001010906.1

    Status: VALIDATED

    Source sequence(s)
    AA482187, AA768146, AB075870, AC019031, AC091573, AK129923, BU429067, CF137482
    Consensus CDS
    CCDS47833.1
    UniProtKB/Swiss-Prot
    Q68CJ6, Q6ZP73
    Related
    ENSP00000408697.2, ENST00000413272.7
    Conserved Domains (1) summary
    cl21455
    Location:103 → 182
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    28021964..28083936 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011544523.3 → XP_011542825.1  nuclear GTPase SLIP-GC isoform X1

    See identical proteins and their annotated locations for XP_011542825.1

    Conserved Domains (1) summary
    cl21455
    Location:127 → 206
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

  2. XM_011544524.4 → XP_011542826.1  nuclear GTPase SLIP-GC isoform X1

    See identical proteins and their annotated locations for XP_011542826.1

    Conserved Domains (1) summary
    cl21455
    Location:127 → 206
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

  3. XM_011544525.2 → XP_011542827.1  nuclear GTPase SLIP-GC isoform X3

  4. XM_017013403.2 → XP_016868892.1  nuclear GTPase SLIP-GC isoform X2

  5. XM_011544526.3 → XP_011542828.1  nuclear GTPase SLIP-GC isoform X4

    Conserved Domains (1) summary
    cl21455
    Location:127 → 206
    P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    28300186..28362146 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054360451.1 → XP_054216426.1  nuclear GTPase SLIP-GC isoform X1

  2. XM_054360452.1 → XP_054216427.1  nuclear GTPase SLIP-GC isoform X1

  3. XM_054360454.1 → XP_054216429.1  nuclear GTPase SLIP-GC isoform X3

  4. XM_054360453.1 → XP_054216428.1  nuclear GTPase SLIP-GC isoform X2

  5. XM_054360455.1 → XP_054216430.1  nuclear GTPase SLIP-GC isoform X4

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q68CJ6.3 GenPept UniProtKB/Swiss-Prot:Q68CJ6

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