Human Gene UBXN2B (ENST00000399598.7_4) from GENCODE V47lift37
  Description: UBX domain protein 2B, transcript variant 4 (from RefSeq NR_156456.1)
Gencode Transcript: ENST00000399598.7_4
Gencode Gene: ENSG00000215114.10_7
Transcript (Including UTRs)
   Position: hg19 chr8:59,323,920-59,364,060 Size: 40,141 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg19 chr8:59,323,945-59,360,110 Size: 36,166 Coding Exon Count: 8 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:59,323,920-59,364,060)mRNA (may differ from genome)Protein (331 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: UBX2B_HUMAN
DESCRIPTION: RecName: Full=UBX domain-containing protein 2B; AltName: Full=NSFL1 cofactor p37; AltName: Full=p97 cofactor p37;
FUNCTION: Adapter protein required for Golgi and endoplasmic reticulum biogenesis. Involved in Golgi and endoplasmic reticulum maintenance during interphase and in their reassembly at the end of mitosis. The complex formed with VCP has membrane fusion activity; membrane fusion activity requires USO1-GOLGA2 tethering and BET1L. VCPIP1 is also required, but not its deubiquitinating activity.
SUBUNIT: Interacts with VCP. Does not bind ubiquitin (By similarity).
SUBCELLULAR LOCATION: Nucleus (By similarity). Cytoplasm, cytosol (By similarity). Endoplasmic reticulum (By similarity). Golgi apparatus (By similarity).
SIMILARITY: Belongs to the NSFL1C family.
SIMILARITY: Contains 1 SEP domain.
SIMILARITY: Contains 1 UBX domain.

-  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: UBXN2B
Diseases sorted by gene-association score: narcolepsy (3)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 19.78 RPKM in Whole Blood
Total median expression: 303.71 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 -7.3025-0.292 Picture PostScript Text
3' UTR -956.363950-0.242 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
IPR012989 - SEP_domain
IPR001012 - UBX

Pfam Domains:
PF00789 - UBX domain
PF08059 - SEP domain

SCOP Domains:
54236 - Ubiquitin-like
102848 - NSFL1 (p97 ATPase) cofactor p47, SEP domain

ModBase Predicted Comparative 3D Structure on Q14CS0
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 SorterGene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0019888 protein phosphatase regulator activity
GO:0043130 ubiquitin binding

Biological Process:
GO:0000045 autophagosome assembly
GO:0000132 establishment of mitotic spindle orientation
GO:0007030 Golgi organization
GO:0031468 nuclear envelope reassembly
GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process
GO:0043666 regulation of phosphoprotein phosphatase activity
GO:0046604 positive regulation of mitotic centrosome separation
GO:0061025 membrane fusion
GO:1904780 negative regulation of protein localization to centrosome

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005783 endoplasmic reticulum
GO:0005794 Golgi apparatus
GO:0005829 cytosol
GO:0031616 spindle pole centrosome


-  Descriptions from all associated GenBank mRNAs
  BC113645 - Homo sapiens UBX domain protein 2B, mRNA (cDNA clone MGC:142205 IMAGE:8322697), complete cds.
LP895591 - Sequence 455 from Patent EP3253886.
AK126300 - Homo sapiens cDNA FLJ44321 fis, clone TRACH3001427, weakly similar to NSFL1 cofactor p47.
HQ258392 - Synthetic construct Homo sapiens clone IMAGE:100072821 UBX domain protein 2B (UBXN2B) gene, encodes complete protein.
KJ900179 - Synthetic construct Homo sapiens clone ccsbBroadEn_09573 UBXN2B gene, encodes complete protein.
AL833075 - Homo sapiens mRNA; cDNA DKFZp451E2019 (from clone DKFZp451E2019).
BX647876 - Homo sapiens mRNA; cDNA DKFZp313A1525 (from clone DKFZp313A1525).
AL831990 - Homo sapiens mRNA; cDNA DKFZp451I123 (from clone DKFZp451I123).
BC070386 - Homo sapiens cDNA clone IMAGE:30320094, partial cds.
JD224172 - Sequence 205196 from Patent EP1572962.
AK091561 - Homo sapiens cDNA FLJ34242 fis, clone FCBBF3028244, weakly similar to C-REL PROTO-ONCOGENE PROTEIN.
JD349824 - Sequence 330848 from Patent EP1572962.
JD226082 - Sequence 207106 from Patent EP1572962.
JD541213 - Sequence 522237 from Patent EP1572962.
JD559131 - Sequence 540155 from Patent EP1572962.
JD409971 - Sequence 390995 from Patent EP1572962.
JD342217 - Sequence 323241 from Patent EP1572962.
JD051448 - Sequence 32472 from Patent EP1572962.
JD501377 - Sequence 482401 from Patent EP1572962.
JD551550 - Sequence 532574 from Patent EP1572962.
JD512420 - Sequence 493444 from Patent EP1572962.
AK054658 - Homo sapiens cDNA FLJ30096 fis, clone BNGH41000045.
JD528071 - Sequence 509095 from Patent EP1572962.
JD499312 - Sequence 480336 from Patent EP1572962.
JD204588 - Sequence 185612 from Patent EP1572962.
JD550905 - Sequence 531929 from Patent EP1572962.
JD402816 - Sequence 383840 from Patent EP1572962.
JD352270 - Sequence 333294 from Patent EP1572962.
JD410790 - Sequence 391814 from Patent EP1572962.
JD306037 - Sequence 287061 from Patent EP1572962.
JD097783 - Sequence 78807 from Patent EP1572962.
JD102267 - Sequence 83291 from Patent EP1572962.
JD235426 - Sequence 216450 from Patent EP1572962.
JD286999 - Sequence 268023 from Patent EP1572962.
JD511943 - Sequence 492967 from Patent EP1572962.
JD528646 - Sequence 509670 from Patent EP1572962.
JD463320 - Sequence 444344 from Patent EP1572962.
JD247608 - Sequence 228632 from Patent EP1572962.
U79282 - Human clone 23801 mRNA sequence.
JD501755 - Sequence 482779 from Patent EP1572962.
JD046092 - Sequence 27116 from Patent EP1572962.
JD171738 - Sequence 152762 from Patent EP1572962.
JD374110 - Sequence 355134 from Patent EP1572962.
JD039391 - Sequence 20415 from Patent EP1572962.
JD203976 - Sequence 185000 from Patent EP1572962.
JD403788 - Sequence 384812 from Patent EP1572962.
JD290269 - Sequence 271293 from Patent EP1572962.
JD414014 - Sequence 395038 from Patent EP1572962.
JD554136 - Sequence 535160 from Patent EP1572962.
JD298318 - Sequence 279342 from Patent EP1572962.
JD240202 - Sequence 221226 from Patent EP1572962.
JD535105 - Sequence 516129 from Patent EP1572962.
JD207515 - Sequence 188539 from Patent EP1572962.
JD315861 - Sequence 296885 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B3KWZ3, ENST00000399598.1, ENST00000399598.2, ENST00000399598.3, ENST00000399598.4, ENST00000399598.5, ENST00000399598.6, NR_156456, Q14CS0, UBX2B_HUMAN, uc319akt.1, uc319akt.2
UCSC ID: ENST00000399598.7_4
RefSeq Accession: NM_001077619.2
Protein: Q14CS0 (aka UBX2B_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.