DEPDC4 Gene
protein-coding GIFtS: 38
GCID: GC12M100597
|
|
DEP domain containing 4
| |
Aliases
for DEPDC4 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| DEP Domain Containing 41 2 | | DEP.41 2 | | FLJ335051 | | DEP Domain-Containing Protein 42 |
Export aliases for DEPDC4 gene to outside databasesPrevious GC identifers: GC12M099100 GC12M099101 GC12M097707 |
Summaries
for DEPDC4 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
-- |
Genomic Views
for DEPDC4 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000012.11 NC_018923.1 NT_029419.12
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the DEPDC4 gene promoter:
TBP STAT1 ATF-2 Pax-2 IRF-1 Pax-2a CRE-BP1 Pax-2b Pax-4a ATF6
Other transcription factors
Search SABiosciences Chromatin IP Primers for DEPDC4
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat DEPDC4 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 12q23.1 Ensembl cytogenetic band: 12q23.1 HGNC cytogenetic band: 12q23DEPDC4 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 12 GeneLoc Exon Structure GeneLoc location for GC12M100597: view genomic region
(about GC identifiers)
Start:
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100,597,447 bp from pter |
End:
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100,660,857 bp from pter |
Size:
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63,411 bases |
Orientation:
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minus strand |
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Proteins
for DEPDC4 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: DEPD4_HUMAN, Q8N2C3 (See
protein sequence)Recommended Name: DEP domain-containing protein 4 Size: 294 amino acids; 33694 Da
Secondary accessions: Q496C8 Q96BW0Alternative splicing: 2 isoforms: Q8N2C3-1 Q8N2C3-2 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for DEPDC4: NX_Q8N2C3
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q8N2C3
DEPDC4 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_689530.1
ENSEMBL proteins: ENSP00000367490 ENSP00000396234 ENSP00000448728 ENSP00000448385 ENSP00000448338 ENSP00000299185 ENSP00000447392 ENSP00000449590
Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005622 | intracellular |
-- | -- |
DEPDC4 for ontologies About GeneDecksing
DEPDC4 Antibody Products:
Assay Products for DEPDC4: |
Protein
Domains /
Families
for DEPDC4 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
DEPDC4 for domains About GeneDecksing
2 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q8N2C3ProtoNet protein and cluster: Q8N2C3 UniProtKB/Swiss-Prot: DEPD4_HUMAN, Q8N2C3Similarity: Contains 1 DEP domain |
Function
for DEPDC4 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for DEPDC4
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for DEPDC4
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: DEPDC4 (NM_152317) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for DEPDC4 | |  | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat DEPDC4 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for DEPDC4 |
|
Pathways & Interactions
for DEPDC4 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for DEPDC4
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0035556 | intracellular signal transduction |
IEA | -- |
DEPDC4 for ontologies About GeneDecksing
|
Drugs & Compounds
for DEPDC4 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for DEPDC4
Search CenterWatch for drugs/clinical trials and news about DEPDC4 / DEPD4
|
Transcripts
for DEPDC4 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for DEPDC4 gene: NM_152317.2 Unigene Cluster for DEPDC4: DEP domain containing 4 Hs.653118 [show with all ESTs]Unigene Representative Sequence: AK09082410 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000378244(uc001thg.1 uc001thh.1) ENST00000549100 ENST00000547823
ENST00000416321(uc001thi.3 uc001thl.1) ENST00000548313 ENST00000550587(uc009ztv.1)
ENST00000549249(uc001thj.1) ENST00000299185(uc001thk.1) ENST00000549341
ENST00000551642
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for DEPDC4
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for DEPDC4
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: DEPDC4 (NM_152317) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for DEPDC4 | | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat DEPDC4 |
Additional cDNA sequence: AK090824.1 BC015117.1 BC039480.1 BC100927.2 BC100928.2 BC100929.1 BC100930.1 4 DOTS entries: DT.100346 DT.97782318 DT.121165872 DT.100020024 10 AceView cDNA sequences: AW242421 BC039480 AI273313 BC015117 AI174472 BM464393 AA884949 AA904979 BE568386 BI023188
GeneLoc Exon Structure
5/6 Alternative Splicing Database (ASD) splice patterns (SP) for DEPDC4 (see all 6) About this scheme
| ExUns: | 1a | · | 1b | · | 1c | ^ | 2a | · | 2b | ^ | 3a | · | 3b | ^ | 4 | ^ | 5a | · | 5b | ^ | 6 | ^ | 7a | · | 7b | · | 7c |
|---|
|
| SP1: | | | | | | | - | | | | | | | | | | | | - | | | | | | | | | | |
| SP2: | | | | | | | - | | - | | | | | | - | | | | - | | | | | | | | | | |
| SP3: | | | | | | | | | | | | | | | - | | | | - | | - | | | | | | | | |
| SP4: | | | | | | | - | | - | | | | | | - | | | | - | | - | | | | | | | | |
| SP5: | | | | | | | | | | | | | | | - | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for DEPDC4
|
Expression
for DEPDC4 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| DEPDC4 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: ACCTATAAAA
About this image
See DEPDC4 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for DEPDC4
SOURCE GeneReport for Unigene cluster: Hs.653118
SABiosciences Custom PCR Arrays for DEPDC4
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for DEPDC4
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse / rat DEPDC4 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat DEPDC4 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat DEPDC4 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for DEPDC4 |
Orthologs
for DEPDC4 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of chordates.
Orthologs for DEPDC4 gene from 2/9 species (see all 9) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
African clawed frog
(Xenopus laevis) |
Amphibia |
BX854738.12 |
-- |
72.2(n) |
|
BX854738.1 |
zebrafish
(Danio rerio) |
Actinopterygii |
si:ch211-265o23.16 |
si:ch211-265o23.1 |
21(a) |
1 ↔ 1 |
4(25123921-25135838) |
ENSEMBL Gene Tree for DEPDC4 (if available)
TreeFam Gene Tree for DEPDC4 (if available) |
Paralogs
for DEPDC4 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for DEPDC4 gene
- DEPDC1B2 DEPDC12 DEPDC72
1 SIMAP similar gene for DEPDC4 using alignment to 6 protein entries: DEPD4_HUMAN (see all proteins):DEPDC7
DEPDC4 for paralogs About GeneDecksing
|
Genomic Variants
for DEPDC4 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 12 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for DEPDC4 (100597447 - 100660857 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for DEPDC4: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing DEPDC4 |
|
Disorders
/ Diseases
for DEPDC4 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
| -- |
Publications
for DEPDC4 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for DEPDC4 gene integrated from 9 sources:
(articles sorted by number of sources associating them with DEPDC4) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (2002)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
|
External Searches for DEPDC4 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing DEPDC4 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing DEPDC4 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing DEPDC4 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for DEPDC4 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for DEPDC4 gene:
Search GeneIP for patents involving DEPDC4
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for DEPDC4 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for DEPDC4 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for DEPDC4 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for DEPDC4 | | | OriGene Protein Over-expression Lysate for DEPDC4 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for DEPDC4 | | Browse 3'-UTR reporter clones for miRNA target validation | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for DEPDC4 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for DEPDC4 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | | OriGene Custom Antibody Services for DEPDC4 | | OriGene Custom Protein Services for DEPDC4 | | | OriGene Custom Immunoassay Development | | |
| |
 |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat DEPDC4 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing DEPDC4 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat DEPDC4 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat DEPDC4 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat DEPDC4 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat DEPDC4 |
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| | | | Search Tocris compounds for DEPDC4 |
| |  |  |  |  | | | | |
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 | | | DEPDC4 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for DEPDC4 |
|  |  |  | | | | Search ThermoFisher Antibodies for DEPDC4 |
| | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat DEPDC4 |
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