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RGPD2 RANBP2 like and GRIP domain containing 2 [ Homo sapiens (human) ]

Gene ID: 729857, updated on 3-Apr-2024

Summary

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Official Symbol
RGPD2provided by HGNC
Official Full Name
RANBP2 like and GRIP domain containing 2provided by HGNC
Primary source
HGNC:HGNC:32415
See related
Ensembl:ENSG00000185304 MIM:612705; AllianceGenome:HGNC:32415
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
RGP2; NUP358; RANBP2L2
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, Apr 2022]
Expression
Broad expression in testis (RPKM 17.3), placenta (RPKM 6.4) and 23 other tissues See more
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Genomic context

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See RGPD2 in Genome Data Viewer
Location:
2p11.2
Exon count:
31
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (87755960..87989818, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (87767943..88004404, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (88055479..88125315, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene NK cell activity associated lncRNA 1 Neighboring gene uncharacterized LOC101928214 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:87983211-87983711 Neighboring gene ANAPC1 pseudogene 4 Neighboring gene plasminogen like B2 Neighboring gene MT-ATP6 pseudogene 28 Neighboring gene MT-ATP8 pseudogene 2 Neighboring gene NADH:ubiquinone oxidoreductase subunit B4 pseudogene 7 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:88302269-88302841 Neighboring gene lysine-rich coiled-coil 1 pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:88302842-88303413 Neighboring gene Sharpr-MPRA regulatory region 1338 Neighboring gene small nucleolar RNA U13 Neighboring gene ANAPC1 pseudogene 5 Neighboring gene WBP1 pseudogene 2

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
  • 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. Complex genomic rearrangements lead to novel primate gene function. Ciccarelli FD, et al. Genome Res, 2005 Mar. PMID 15710750, Free PMC Article
  2. Genome-wide search for replicable risk gene regions in alcohol and nicotine co-dependence. Zuo L, et al. Am J Med Genet B Neuropsychiatr Genet, 2012 Jun. PMID 22488850, Free PMC Article
  3. Unbiased Identification of trans Regulators of ADAR and A-to-I RNA Editing. Freund EC, et al. Cell Rep, 2020 May 19. PMID 32433965, Free PMC Article
  4. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Hillier LW, et al. Nature, 2005 Apr 7. PMID 15815621
  5. ∆F508 CFTR interactome remodelling promotes rescue of cystic fibrosis. Pankow S, et al. Nature, 2015 Dec 24. PMID 26618866, Free PMC Article

See all (12) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide search for replicable risk gene regions in alcohol and nicotine co-dependence.
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

  • FLJ56975

Gene Ontology Provided by GOA

Function Evidence Code Pubs
contributes_to GTPase activator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
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
  

General protein information

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Preferred Names
RANBP2-like and GRIP domain-containing protein 2
Names
Ran binding protein 2-like 2
nucleoporin
ran-binding protein 2-like 2
ranBP2-like 2

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_001078170.3 → NP_001071638.2  RANBP2-like and GRIP domain-containing protein 2 isoform 1

    See identical proteins and their annotated locations for NP_001071638.2

    Status: VALIDATED

    Source sequence(s)
    AC093616
    Consensus CDS
    CCDS42710.2
    UniProtKB/Swiss-Prot
    P0DJD1
    UniProtKB/TrEMBL
    B4DYH0
    Related
    ENSP00000381214.3, ENST00000398146.5
    Conserved Domains (8) summary
    smart00028
    Location:59 → 90
    TPR; Tetratricopeptide repeats
    COG5171
    Location:968 → 1160
    YRB1; Ran GTPase-activating protein (Ran-binding protein) [Intracellular trafficking and secretion]
    cd13177
    Location:1044 → 1160
    RanBD2_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 2
    cd14685
    Location:1341 → 1457
    RanBD3_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 3
    sd00006
    Location:58 → 88
    TPR; TPR repeat [structural motif]
    pfam01465
    Location:1698 → 1740
    GRIP; GRIP domain
    pfam13414
    Location:58 → 125
    TPR_11; TPR repeat
    pfam16704
    Location:1634 → 1694
    Rab_bind; Rab binding domain

  2. NM_001393613.1 → NP_001380542.1  RANBP2-like and GRIP domain-containing protein 2 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC093616
    UniProtKB/TrEMBL
    B4DYH0
    Conserved Domains (8) summary
    smart00028
    Location:59 → 90
    TPR; Tetratricopeptide repeats
    smart00755
    Location:1645 → 1690
    Grip; golgin-97, RanBP2alpha,Imh1p and p230/golgin-245
    COG0457
    Location:29 → 125
    TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
    cd13177
    Location:991 → 1107
    RanBD2_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 2
    cd14685
    Location:1288 → 1404
    RanBD3_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 3
    TIGR02917
    Location:16 → 213
    PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
    sd00006
    Location:58 → 88
    TPR; TPR repeat [structural motif]
    pfam16704
    Location:1581 → 1641
    Rab_bind; Rab binding domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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
    87755960..87989818 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047445734.1 → XP_047301690.1  RANBP2-like and GRIP domain-containing protein 2 isoform X2

  2. XM_017004845.2 → XP_016860334.2  RANBP2-like and GRIP domain-containing protein 2 isoform X1

  3. XM_047445738.1 → XP_047301694.1  RANBP2-like and GRIP domain-containing protein 2 isoform X6

  4. XM_047445735.1 → XP_047301691.1  RANBP2-like and GRIP domain-containing protein 2 isoform X3

  5. XM_047445737.1 → XP_047301693.1  RANBP2-like and GRIP domain-containing protein 2 isoform X5

  6. XM_047445736.1 → XP_047301692.1  RANBP2-like and GRIP domain-containing protein 2 isoform X4

RNA

  1. XR_007081580.1 RNA Sequence

  2. XR_007081581.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    87767943..88004404 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054343735.1 → XP_054199710.1  RANBP2-like and GRIP domain-containing protein 2 isoform X9

  2. XM_054343733.1 → XP_054199708.1  RANBP2-like and GRIP domain-containing protein 2 isoform X7

  3. XM_054343734.1 → XP_054199709.1  RANBP2-like and GRIP domain-containing protein 2 isoform X8

  4. XM_054343738.1 → XP_054199713.1  RANBP2-like and GRIP domain-containing protein 2 isoform X12

  5. XM_054343737.1 → XP_054199712.1  RANBP2-like and GRIP domain-containing protein 2 isoform X11

  6. XM_054343736.1 → XP_054199711.1  RANBP2-like and GRIP domain-containing protein 2 isoform X10

RNA

  1. XR_008486505.1 RNA Sequence

  2. XR_008486506.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P0DJD1.1 GenPept UniProtKB/Swiss-Prot:P0DJD1

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