Human Gene DERL1 (ENST00000259512.9_7) from GENCODE V47lift37
  Description: derlin 1, transcript variant 1 (from RefSeq NM_024295.6)
Gencode Transcript: ENST00000259512.9_7
Gencode Gene: ENSG00000136986.10_9
Transcript (Including UTRs)
   Position: hg19 chr8:124,025,410-124,054,542 Size: 29,133 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg19 chr8:124,027,687-124,054,362 Size: 26,676 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:124,025,410-124,054,542)mRNA (may differ from genome)Protein (251 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: DERL1_HUMAN
DESCRIPTION: RecName: Full=Derlin-1; AltName: Full=Degradation in endoplasmic reticulum protein 1; Short=DERtrin-1; AltName: Full=Der1-like protein 1;
FUNCTION: Functional component of endoplasmic reticulum-associated degradation (ERAD) for misfolded lumenal proteins. May act by forming a channel that allows the retrotranslocation of misfolded proteins into the cytosol where they are ubiquitinated and degraded by the proteasome. May mediate the interaction between VCP and the degradation substrate. In case of infection by cytomegaloviruses, it plays a central role in the export from the ER and subsequent degradation of MHC class I heavy chains via its interaction with US11 viral protein, which recognizes and associates with MHC class I heavy chains. Also participates in the degradation process of misfolded cytomegalovirus US2 protein.
SUBUNIT: Forms homo- and heterooligomers with DERL2 and DERL3; binding to DERL3 is poorer than that between DERL2 and DERL3. Interacts with AMFR, VIMP/SELS, SEL1L, SYVN1 and VCP, as well as with SEL1L-SYVN1 and VCP-VIMP protein complexes; this interaction is weaker than that observed between DERL2 and these complexes. Interacts with the cytomegalovirus US11 protein. Interacts with NGLY1 and YOD1. Does not bind to EDEM1. Interacts with RNF103.
INTERACTION: P51572:BCAP31; NbExp=3; IntAct=EBI-398977, EBI-77683; P13569:CFTR; NbExp=2; IntAct=EBI-398977, EBI-349854;
SUBCELLULAR LOCATION: Endoplasmic reticulum membrane; Multi-pass membrane protein.
TISSUE SPECIFICITY: Ubiquitous.
INDUCTION: Up-regulated in response to endoplasmic reticulum stress via the ERN1-XBP1 pathway of the unfolded protein response (UPR) (By similarity).
SIMILARITY: Belongs to the derlin family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: DERL1
Diseases sorted by gene-association score: cystic fibrosis (7)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 26.44 RPKM in Spleen
Total median expression: 830.81 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -77.60180-0.431 Picture PostScript Text
3' UTR -635.402277-0.279 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR007599 - DER1

Pfam Domains:
PF04511 - Der1-like family

SCOP Domains:
144091 - Rhomboid-like

ModBase Predicted Comparative 3D Structure on Q9BUN8
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
Gene SorterGene Sorter Gene Sorter  
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0002020 protease binding
GO:0005515 protein binding
GO:0031625 ubiquitin protein ligase binding
GO:0038023 signaling receptor activity
GO:0042288 MHC class I protein binding
GO:0051117 ATPase binding
GO:1990381 ubiquitin-specific protease binding

Biological Process:
GO:0006457 protein folding
GO:0006986 response to unfolded protein
GO:0015031 protein transport
GO:0016032 viral process
GO:0016567 protein ubiquitination
GO:0030433 ER-associated ubiquitin-dependent protein catabolic process
GO:0030968 endoplasmic reticulum unfolded protein response
GO:0030970 retrograde protein transport, ER to cytosol
GO:0031398 positive regulation of protein ubiquitination
GO:0031648 protein destabilization
GO:0032092 positive regulation of protein binding
GO:0034620 cellular response to unfolded protein
GO:0036503 ERAD pathway
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0045184 establishment of protein localization
GO:0051260 protein homooligomerization
GO:0055085 transmembrane transport
GO:0071712 ER-associated misfolded protein catabolic process

Cellular Component:
GO:0005769 early endosome
GO:0005770 late endosome
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030176 integral component of endoplasmic reticulum membrane
GO:0036502 Derlin-1-VIMP complex
GO:0036513 Derlin-1 retrotranslocation complex
GO:0005785 signal recognition particle receptor complex
GO:0034098 VCP-NPL4-UFD1 AAA ATPase complex
GO:0048500 signal recognition particle


-  Descriptions from all associated GenBank mRNAs
  AF131854 - Homo sapiens clone 25242 mRNA sequence.
AY358818 - Homo sapiens clone DNA16435 SDIG243 (UNQ243) mRNA, complete cds.
BC037174 - Homo sapiens Der1-like domain family, member 1, mRNA (cDNA clone IMAGE:5539794).
AF116708 - Homo sapiens PRO2577 mRNA, complete cds.
JD068064 - Sequence 49088 from Patent EP1572962.
BC050691 - Homo sapiens Der1-like domain family, member 1, mRNA (cDNA clone IMAGE:4480011).
LF209491 - JP 2014500723-A/16994: Polycomb-Associated Non-Coding RNAs.
AK023846 - Homo sapiens cDNA FLJ13784 fis, clone PLACE4000593.
AK124086 - Homo sapiens cDNA FLJ42092 fis, clone TESOP2002273, highly similar to Derlin-1.
JD019447 - Sequence 471 from Patent EP1572962.
JD029105 - Sequence 10129 from Patent EP1572962.
AK313675 - Homo sapiens cDNA, FLJ94261.
LF328896 - JP 2014500723-A/136399: Polycomb-Associated Non-Coding RNAs.
LF328897 - JP 2014500723-A/136400: Polycomb-Associated Non-Coding RNAs.
AK303826 - Homo sapiens cDNA FLJ57771 complete cds, highly similar to Derlin-1.
BC002457 - Homo sapiens Der1-like domain family, member 1, mRNA (cDNA clone MGC:3067 IMAGE:3345230), complete cds.
LF328898 - JP 2014500723-A/136401: Polycomb-Associated Non-Coding RNAs.
JD049448 - Sequence 30472 from Patent EP1572962.
JD361349 - Sequence 342373 from Patent EP1572962.
HQ447233 - Synthetic construct Homo sapiens clone IMAGE:100070538; CCSB008006_02 Der1-like domain family, member 1 (DERL1) gene, encodes complete protein.
KJ894659 - Synthetic construct Homo sapiens clone ccsbBroadEn_04053 DERL1 gene, encodes complete protein.
LF328900 - JP 2014500723-A/136403: Polycomb-Associated Non-Coding RNAs.
LF328901 - JP 2014500723-A/136404: Polycomb-Associated Non-Coding RNAs.
LF328903 - JP 2014500723-A/136406: Polycomb-Associated Non-Coding RNAs.
JD474027 - Sequence 455051 from Patent EP1572962.
MA564473 - JP 2018138019-A/136399: Polycomb-Associated Non-Coding RNAs.
MA564474 - JP 2018138019-A/136400: Polycomb-Associated Non-Coding RNAs.
MA564475 - JP 2018138019-A/136401: Polycomb-Associated Non-Coding RNAs.
MA564477 - JP 2018138019-A/136403: Polycomb-Associated Non-Coding RNAs.
MA564478 - JP 2018138019-A/136404: Polycomb-Associated Non-Coding RNAs.
MA564480 - JP 2018138019-A/136406: Polycomb-Associated Non-Coding RNAs.
MA445068 - JP 2018138019-A/16994: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9BUN8 (Reactome details) participates in the following event(s):

R-HSA-8943083 US11:HLA binds DERL1:TMEM129:Ub:UBE2J2,UBE2K:VIMP:VCP
R-HSA-8850594 Deglycosylation complex hydrolyses N-glycans from unfolded glycoproteins
R-HSA-8866551 CFTR binds components of the ERAD machinery for ubiquitination and degradation
R-HSA-8866857 CFTR F508del binds components of the ERAD machinery for ubiquitination and degradation
R-HSA-8866542 VCP-catalyzed ATP hydrolysis promotes the translocation of misfolded CFTR into the cytosol
R-HSA-8866854 VCP-catalyzed ATP hydrolysis promotes the translocation of CFTR F508del into the cytosol
R-HSA-8866546 RNF5 and RNF185 ubiquitinate misfolded CFTR
R-HSA-8866856 RNF5 and RNF185 ubiquitinate CFTR F508del
R-HSA-8866654 E3 ubiquitin ligases ubiquitinate target proteins
R-HSA-532668 N-glycan trimming in the ER and Calnexin/Calreticulin cycle
R-HSA-8852135 Protein ubiquitination
R-HSA-446203 Asparagine N-linked glycosylation
R-HSA-597592 Post-translational protein modification
R-HSA-382556 ABC-family proteins mediated transport
R-HSA-5678895 Defective CFTR causes cystic fibrosis
R-HSA-392499 Metabolism of proteins
R-HSA-382551 Transport of small molecules
R-HSA-5619084 ABC transporter disorders
R-HSA-5619115 Disorders of transmembrane transporters
R-HSA-1643685 Disease

-  Other Names for This Gene
  Alternate Gene Symbols: B3KW41, DER1, DERL1 , DERL1_HUMAN, E9PH19, ENST00000259512.1, ENST00000259512.2, ENST00000259512.3, ENST00000259512.4, ENST00000259512.5, ENST00000259512.6, ENST00000259512.7, ENST00000259512.8, NM_024295, Q9BUN8, uc317ggy.1, uc317ggy.2, UNQ243/PRO276
UCSC ID: ENST00000259512.9_7
RefSeq Accession: NM_024295.6
Protein: Q9BUN8 (aka DERL1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.