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RGPD8 RANBP2 like and GRIP domain containing 8 [ Homo sapiens (human) ]

Gene ID: 727851, updated on 14-Nov-2024

Summary

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Official Symbol
RGPD8provided by HGNC
Official Full Name
RANBP2 like and GRIP domain containing 8provided by HGNC
Primary source
HGNC:HGNC:9849
See related
Ensembl:ENSG00000169629 MIM:602752; AllianceGenome:HGNC:9849
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
RGP8; RANBP2L1; RanBP2alpha
Summary
Predicted to contribute to GTPase activator activity. Predicted to be involved in NLS-bearing protein import into nucleus. Predicted to be part of nuclear pore. Predicted to be active in cytoplasm. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in testis (RPKM 26.7), brain (RPKM 9.2) and 25 other tissues See more
Orthologs
all
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Genomic context

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See RGPD8 in Genome Data Viewer
Location:
2q14.1
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (112368369..112433645, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (112795145..112860251, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (113125946..113191222, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene NADH:ubiquinone oxidoreductase subunit B4 pseudogene 6 Neighboring gene zinc finger CCCH-type containing 6 Neighboring gene uncharacterized LOC124906067 Neighboring gene axin 2 pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:113191810-113192788 Neighboring gene vinculin/alpha-catenin family member 1, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16392 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11872 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11873 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11874 Neighboring gene tubulin tyrosine ligase Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:113286172-113286672 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:113286673-113287173 Neighboring gene uncharacterized LOC105373562

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. Identification of a novel Ran binding protein 2 related gene (RANBP2L1) and detection of a gene cluster on human chromosome 2q11-q12. Nothwang HG, et al. Genomics, 1998 Feb 1. PMID 9480752
  2. Complex genomic rearrangements lead to novel primate gene function. Ciccarelli FD, et al. Genome Res, 2005 Mar. PMID 15710750, Free PMC Article
  3. Proximity interactions of the ubiquitin ligase Mind bomb 1 reveal a role in regulation of epithelial polarity complex proteins. Dho SE, et al. Sci Rep, 2019 Aug 28. PMID 31462741, Free PMC Article
  4. Proximity labeling of endogenous RICTOR identifies mTOR complex 2 regulation by ADP ribosylation factor ARF1. Luciano AK, et al. J Biol Chem, 2022 Oct. PMID 35973513, Free PMC Article
  5. USP7 targets XIAP for cancer progression: Establishment of a p53-independent therapeutic avenue for glioma. Saha G, et al. Oncogene, 2022 Nov. PMID 36243803

See all (28) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Replication interactions

Interaction Pubs
Knockdown of RANBP2-like and GRIP domain containing 8 (RGPD8) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

Go to the HIV-1, Human Interaction Database

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 GOA

Function Evidence Code Pubs
contributes_to GTPase activator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables small GTPase binding NAS
Non-traceable Author Statement
more info
 PubMed 
Process Evidence Code Pubs
involved_in NLS-bearing protein import into nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of nuclear pore IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of nuclear pore NAS
Non-traceable Author Statement
more info
 PubMed 

General protein information

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Preferred Names
RANBP2-like and GRIP domain-containing protein 8
Names
RAN binding protein 2-like 1
ran-binding protein 2-like 3
ranBP2-like 3
ranBP2L3

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_001164463.1 → NP_001157935.1  RANBP2-like and GRIP domain-containing protein 8

    See identical proteins and their annotated locations for NP_001157935.1

    Status: VALIDATED

    Source sequence(s)
    AC112246, AC115115
    Consensus CDS
    CCDS46394.1
    UniProtKB/Swiss-Prot
    O14715, Q5CZA8
    UniProtKB/TrEMBL
    A0A8Q3SIN4
    Related
    ENSP00000306637.3, ENST00000302558.8
    Conserved Domains (8) summary
    COG5171
    Location:975 → 1167
    YRB1; Ran GTPase-activating protein (Ran-binding protein) [Intracellular trafficking and secretion]
    cd13177
    Location:1051 → 1167
    RanBD2_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 2
    cd14685
    Location:1348 → 1464
    RanBD3_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 3
    sd00006
    Location:59 → 89
    TPR; TPR repeat [structural motif]
    pfam00515
    Location:60 → 92
    TPR_1; Tetratricopeptide repeat
    pfam01465
    Location:1707 → 1749
    GRIP; GRIP domain
    pfam13414
    Location:59 → 126
    TPR_11; TPR repeat
    pfam16704
    Location:1641 → 1705
    Rab_bind; Rab binding domain

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_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    112368369..112433645 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024453101.2 → XP_024308869.1  RANBP2-like and GRIP domain-containing protein 8 isoform X1

    UniProtKB/TrEMBL
    A0A8Q3SIN4
    Related
    ENSP00000386511.1, ENST00000409750.5
    Conserved Domains (7) summary
    COG0457
    Location:4 → 100
    TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
    cd13177
    Location:1025 → 1141
    RanBD2_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 2
    cd14685
    Location:1322 → 1438
    RanBD3_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 3
    sd00006
    Location:33 → 63
    TPR; TPR repeat [structural motif]
    pfam16704
    Location:1615 → 1679
    Rab_bind; Rab binding domain
    pfam00515
    Location:34 → 66
    TPR_1; Tetratricopeptide repeat
    pfam01465
    Location:1680 → 1723
    GRIP; GRIP domain

  2. XM_047445676.1 → XP_047301632.1  RANBP2-like and GRIP domain-containing protein 8 isoform X5

  3. XM_005263747.6 → XP_005263804.1  RANBP2-like and GRIP domain-containing protein 8 isoform X4

    UniProtKB/TrEMBL
    A0A8Q3SIN4
    Conserved Domains (6) summary
    COG5171
    Location:975 → 1167
    YRB1; Ran GTPase-activating protein (Ran-binding protein) [Intracellular trafficking and secretion]
    cd13177
    Location:1051 → 1167
    RanBD2_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 2
    cd14685
    Location:1348 → 1464
    RanBD3_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 3
    sd00006
    Location:59 → 89
    TPR; TPR repeat [structural motif]
    pfam00515
    Location:60 → 92
    TPR_1; Tetratricopeptide repeat
    pfam13414
    Location:59 → 126
    TPR_11; TPR repeat

  4. XM_011511733.3 → XP_011510035.1  RANBP2-like and GRIP domain-containing protein 8 isoform X2

    UniProtKB/TrEMBL
    A0A8Q3SIN4
    Conserved Domains (6) summary
    COG5171
    Location:975 → 1167
    YRB1; Ran GTPase-activating protein (Ran-binding protein) [Intracellular trafficking and secretion]
    cd13177
    Location:1051 → 1167
    RanBD2_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 2
    cd14685
    Location:1348 → 1464
    RanBD3_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 3
    sd00006
    Location:59 → 89
    TPR; TPR repeat [structural motif]
    pfam00515
    Location:60 → 92
    TPR_1; Tetratricopeptide repeat
    pfam13414
    Location:59 → 126
    TPR_11; TPR repeat

  5. XM_017004825.2 → XP_016860314.1  RANBP2-like and GRIP domain-containing protein 8 isoform X3

    UniProtKB/TrEMBL
    A0A8Q3SIN4

  6. XM_017004826.3 → XP_016860315.1  RANBP2-like and GRIP domain-containing protein 8 isoform X6

    UniProtKB/TrEMBL
    F8W705
    Related
    ENSP00000327486.5, ENST00000330575.9

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    112795145..112860251 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054343670.1 → XP_054199645.1  RANBP2-like and GRIP domain-containing protein 8 isoform X1

  2. XM_054343674.1 → XP_054199649.1  RANBP2-like and GRIP domain-containing protein 8 isoform X5

  3. XM_054343673.1 → XP_054199648.1  RANBP2-like and GRIP domain-containing protein 8 isoform X4

  4. XM_054343671.1 → XP_054199646.1  RANBP2-like and GRIP domain-containing protein 8 isoform X2

  5. XM_054343672.1 → XP_054199647.1  RANBP2-like and GRIP domain-containing protein 8 isoform X3

  6. XM_054343675.1 → XP_054199650.1  RANBP2-like and GRIP domain-containing protein 8 isoform X6

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O14715.2 GenPept UniProtKB/Swiss-Prot:O14715

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