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DEPDC1 DEP domain containing 1 [ Homo sapiens (human) ]

Gene ID: 55635, updated on 10-Dec-2024

Summary

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Official Symbol
DEPDC1provided by HGNC
Official Full Name
DEP domain containing 1provided by HGNC
Primary source
HGNC:HGNC:22949
See related
Ensembl:ENSG00000024526 MIM:612002; AllianceGenome:HGNC:22949
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
DEP.8; SDP35; DEPDC1A; DEPDC1-V2
Summary
Predicted to enable GTPase activator activity. Involved in negative regulation of DNA-templated transcription. Located in nucleus. Part of transcription repressor complex. [provided by Alliance of Genome Resources, Dec 2024]
Expression
Biased expression in testis (RPKM 5.4), lymph node (RPKM 3.0) and 13 other tissues See more
Orthologs
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Genomic context

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See DEPDC1 in Genome Data Viewer
Location:
1p31.3
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (68474152..68497082, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (68351536..68374468, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (68939835..68962765, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:68849743-68850942 Neighboring gene elongin C pseudogene 18 Neighboring gene uncharacterized LOC124904198 Neighboring gene retinoid isomerohydrolase RPE65 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:68924860-68926059 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:68930526-68931161 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1184 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1185 Neighboring gene DEPDC1 antisense RNA 1 Neighboring gene thioredoxin pseudogene 2 Neighboring gene uncharacterized LOC107984967

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Comprehensive analysis and validation reveal DEPDC1 as a potential diagnostic biomarker associated with tumor immunity in non-small-cell lung cancer. Lv M, et al. PLoS One, 2024. PMID 38564630, Free PMC Article
  2. Involvement of upregulation of DEPDC1 (DEP domain containing 1) in bladder carcinogenesis. Kanehira M, et al. Oncogene, 2007 Sep 27. PMID 17452976
  3. Inhibition of DEPDC1A, a bad prognostic marker in multiple myeloma, delays growth and induces mature plasma cell markers in malignant plasma cells. Kassambara A, et al. PLoS One, 2013. PMID 23646139, Free PMC Article
  4. DEP domain containing 1 is a novel diagnostic marker and prognostic predictor for hepatocellular carcinoma. Yuan SG, et al. Asian Pac J Cancer Prev, 2014. PMID 25605201
  5. DEPDC1 is a novel cell cycle related gene that regulates mitotic progression. Mi Y, et al. BMB Rep, 2015 Jul. PMID 25902835, Free PMC Article

See all (48) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. DEPDC1 as a metabolic target regulates glycolysis in renal cell carcinoma through AKT/mTOR/HIF1alpha pathway.
    Title: DEPDC1 as a metabolic target regulates glycolysis in renal cell carcinoma through AKT/mTOR/HIF1α pathway.
  2. Comprehensive analysis and validation reveal DEPDC1 as a potential diagnostic biomarker associated with tumor immunity in non-small-cell lung cancer.
    Title: Comprehensive analysis and validation reveal DEPDC1 as a potential diagnostic biomarker associated with tumor immunity in non-small-cell lung cancer.
  3. DEPDC1 as a crucial factor in the progression of human osteosarcoma.
    Title: DEPDC1 as a crucial factor in the progression of human osteosarcoma.
  4. DEPDC1 and KIF4A synergistically inhibit the malignant biological behavior of osteosarcoma cells through Hippo signaling pathway.
    Title: DEPDC1 and KIF4A synergistically inhibit the malignant biological behavior of osteosarcoma cells through Hippo signaling pathway.
  5. Glycolysis-Related Gene Analyses Indicate That DEPDC1 Promotes the Malignant Progression of Oral Squamous Cell Carcinoma via the WNT/beta-Catenin Signaling Pathway.
    Title: Glycolysis-Related Gene Analyses Indicate That DEPDC1 Promotes the Malignant Progression of Oral Squamous Cell Carcinoma via the WNT/β-Catenin Signaling Pathway.
  6. Silencing eL31 suppresses the progression of colorectal cancer via targeting DEPDC1.
    Title: Silencing eL31 suppresses the progression of colorectal cancer via targeting DEPDC1.
  7. FOXO3amodulated DEPDC1 promotes malignant progression of nephroblastoma via the Wnt/betacatenin signaling pathway.
    Title: FOXO3a‑modulated DEPDC1 promotes malignant progression of nephroblastoma via the Wnt/β‑catenin signaling pathway.
  8. Long non-coding RNA DEPDC1-AS1 promotes proliferation and migration of human gastric cancer cells HGC-27 via the human antigen R-F11R pathway.
    Title: Long non-coding RNA DEPDC1-AS1 promotes proliferation and migration of human gastric cancer cells HGC-27 via the human antigen R-F11R pathway.
  9. Linc-ROR facilitates progression and angiogenesis of hepatocellular carcinoma by modulating DEPDC1 expression.
    Title: Linc-ROR facilitates progression and angiogenesis of hepatocellular carcinoma by modulating DEPDC1 expression.
  10. [DEPDC1 is Highly Expressed in Lung Adenocarcinoma and Promotes Tumor Cell Proliferation].
    Title: [DEPDC1 is Highly Expressed in Lung Adenocarcinoma and Promotes Tumor Cell Proliferation].
Submit: New GeneRIF Correction See all GeneRIFs (33)

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Clone Names

  • FLJ20354, 5830484J08Rik

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables GTPase activator activity IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in intracellular signal transduction IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
part_of transcription repressor complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of transcription repressor complex IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
DEP domain-containing protein 1A
Names
cell cycle control protein SDP35

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_001114120.3 → NP_001107592.1  DEP domain-containing protein 1A isoform a

    See identical proteins and their annotated locations for NP_001107592.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AB281187, BU588593, DB147703
    Consensus CDS
    CCDS44159.1
    UniProtKB/Swiss-Prot
    A8QXE0, A8QXE1, Q05DU3, Q5TB28, Q5TB30, Q9H9I3, Q9NX21, Q9NXZ0
    UniProtKB/TrEMBL
    B7Z5R5
    Related
    ENSP00000412292.2, ENST00000456315.7
    Conserved Domains (3) summary
    cd04405
    Location:181 → 308
    RhoGAP_BRCC3-like; RhoGAP_BRCC3-like: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of BRCC3-like proteins. This subgroup also contains two groups of closely related proteins, BRCC3 and DEPDC7, which both contain a C-terminal RhoGAP-like domain ...
    cl02442
    Location:15 → 106
    DEP; DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is ...
    cl02570
    Location:584 → 690
    RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...

  2. NM_017779.6 → NP_060249.2  DEP domain-containing protein 1A isoform b

    See identical proteins and their annotated locations for NP_060249.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the central coding region, compared to variant 1. The encoded isoform (b) is shorter, compared to isoform a.
    Source sequence(s)
    AB281274, BU588593, DB147703
    Consensus CDS
    CCDS644.1
    UniProtKB/Swiss-Prot
    Q5TB30
    Related
    ENSP00000360005.5, ENST00000370966.9
    Conserved Domains (2) summary
    cd04405
    Location:181 → 406
    RhoGAP_BRCC3-like; RhoGAP_BRCC3-like: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of BRCC3-like proteins. This subgroup also contains two groups of closely related proteins, BRCC3 and DEPDC7, which both contain a C-terminal RhoGAP-like domain ...
    cl02442
    Location:15 → 106
    DEP; DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is ...

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    68474152..68497082 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    68351536..68374468 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5TB30.2 GenPept UniProtKB/Swiss-Prot:Q5TB30

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
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