Human Gene PEDS1 (ENST00000371650.9_5) from GENCODE V47lift37
  Description: plasmanylethanolamine desaturase 1, transcript variant 2 (from RefSeq NM_001162505.2)
Gencode Transcript: ENST00000371650.9_5
Gencode Gene: ENSG00000240849.11_14
Transcript (Including UTRs)
   Position: hg19 chr20:48,740,274-48,770,271 Size: 29,998 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr20:48,741,595-48,770,174 Size: 28,580 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr20:48,740,274-48,770,271)mRNA (may differ from genome)Protein (267 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
OMIMPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TM189_HUMAN
DESCRIPTION: RecName: Full=Transmembrane protein 189;
SUBCELLULAR LOCATION: Endoplasmic reticulum membrane; Multi-pass membrane protein.
MISCELLANEOUS: TMEM189/KUA and UBE2V1/UEV1 are adjacent genes which can produce independent proteins and can also be fused to form a TMEM189-UBE2V1 hybrid protein.

-  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


+  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: 32.27 RPKM in Brain - Spinal cord (cervical c-1)
Total median expression: 746.01 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 -52.3097-0.539 Picture PostScript Text
3' UTR -496.301321-0.376 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
IPR019547 - KuaUb-conj-enz_UEV1

Pfam Domains:
PF10520 - Lipid desaturase domain

ModBase Predicted Comparative 3D Structure on A5PLL7
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    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0031625 ubiquitin protein ligase binding
GO:0061630 ubiquitin protein ligase activity

Biological Process:
GO:0016567 protein ubiquitination

Cellular Component:
GO:0005737 cytoplasm
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  BC172339 - Synthetic construct Homo sapiens clone IMAGE:100069033, MGC:199044 TMEM189-UBE2V1 readthrough transcript (TMEM189-UBE2V1) mRNA, encodes complete protein.
AB587452 - Synthetic construct DNA, clone: pF1KB7917, Homo sapiens TMEM189-UBE2V1 gene for TMEM189-UBE2V1 readthrough, without stop codon, in Flexi system.
AF155120 - Homo sapiens ubiquitin-conjugating enzyme variant Kua (UBE2V) mRNA, complete cds.
AK023028 - Homo sapiens cDNA FLJ12966 fis, clone NT2RP2005784, highly similar to Homo sapiens ubiquitin-conjugating enzyme variant Kua (UBE2V) mRNA.
BC018893 - Homo sapiens transmembrane protein 189, mRNA (cDNA clone IMAGE:3952843).
BC144612 - Homo sapiens cDNA clone IMAGE:9053143.
AB044550 - Homo sapiens P/OKcl.19 mRNA for ubiquitin-conjyugating enzyme E2, complete cds.
BC142966 - Homo sapiens transmembrane protein 189, mRNA (cDNA clone MGC:167053 IMAGE:8860386), complete cds.
BC140089 - Synthetic construct Homo sapiens clone IMAGE:100013619, MGC:167435 transmembrane protein 189 (TMEM189) mRNA, encodes complete protein.
BC143091 - Synthetic construct Homo sapiens clone IMAGE:100000852, MGC:167434 transmembrane protein 189 (TMEM189) mRNA, encodes complete protein.
KJ900691 - Synthetic construct Homo sapiens clone ccsbBroadEn_10085 TMEM189 gene, encodes complete protein.
U39361 - Homo sapiens DNA-binding protein (CROC-1B) mRNA, complete cds.
AK304595 - Homo sapiens cDNA FLJ56328 complete cds, highly similar to Homo sapiens ubiquitin-conjugating enzyme variant Kua (Kua), mRNA.
LF206033 - JP 2014500723-A/13536: Polycomb-Associated Non-Coding RNAs.
LF350705 - JP 2014500723-A/158208: Polycomb-Associated Non-Coding RNAs.
LF350707 - JP 2014500723-A/158210: Polycomb-Associated Non-Coding RNAs.
JD194559 - Sequence 175583 from Patent EP1572962.
JD469774 - Sequence 450798 from Patent EP1572962.
JD408702 - Sequence 389726 from Patent EP1572962.
MA586282 - JP 2018138019-A/158208: Polycomb-Associated Non-Coding RNAs.
MA586284 - JP 2018138019-A/158210: Polycomb-Associated Non-Coding RNAs.
MA441610 - JP 2018138019-A/13536: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A5PLL7, ENST00000371650.1, ENST00000371650.2, ENST00000371650.3, ENST00000371650.4, ENST00000371650.5, ENST00000371650.6, ENST00000371650.7, ENST00000371650.8, KUA , NM_001162505, PDES , PDES1_HUMAN, PEDS1 , TMEM189 , uc318jhl.1, uc318jhl.2
UCSC ID: ENST00000371650.9_5
RefSeq Accession: NM_001162505.2
Protein: A5PLL7 (aka TM189_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.