Human Gene RNF144A (ENST00000320892.11_4) from GENCODE V47lift37
  Description: ring finger protein 144A, transcript variant 2 (from RefSeq NM_014746.6)
Gencode Transcript: ENST00000320892.11_4
Gencode Gene: ENSG00000151692.15_10
Transcript (Including UTRs)
   Position: hg19 chr2:7,057,543-7,184,310 Size: 126,768 Total Exon Count: 9 Strand: +
Coding Region
   Position: hg19 chr2:7,137,058-7,179,891 Size: 42,834 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:7,057,543-7,184,310)mRNA (may differ from genome)Protein (292 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIPubMedReactomeUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: R144A_HUMAN
DESCRIPTION: RecName: Full=Probable E3 ubiquitin-protein ligase RNF144A; EC=6.3.2.-; AltName: Full=RING finger protein 144A; AltName: Full=UbcM4-interacting protein 4; AltName: Full=Ubiquitin-conjugating enzyme 7-interacting protein 4;
FUNCTION: E3 ubiquitin-protein ligase which accepts ubiquitin from E2 ubiquitin-conjugating enzymes UBE2L3 and UBE2L6 in the form of a thioester and then directly transfers the ubiquitin to targeted substrates (By similarity).
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Interacts with UBE2L3.
SUBCELLULAR LOCATION: Membrane; Single-pass membrane protein (Potential).
SIMILARITY: Belongs to the RBR family. RNF144 subfamily.
SIMILARITY: Contains 1 IBR-type zinc finger.
SIMILARITY: Contains 2 RING-type zinc fingers.
CAUTION: Lacks the His residue in the RING-type domain 2 that is one of the conserved features of the family.
SEQUENCE CAUTION: Sequence=BAA11478.2; Type=Erroneous initiation;

-  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


-  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: 46.05 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 416.95 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 -208.70422-0.495 Picture PostScript Text
3' UTR -1322.394419-0.299 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
IPR002867 - Znf_C6HC
IPR001841 - Znf_RING
IPR017907 - Znf_RING_CS

Pfam Domains:
PF01485 - IBR domain, a half RING-finger domain

SCOP Domains:
57850 - RING/U-box
57889 - Cysteine-rich domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1WIM - NMR MuPIT


ModBase Predicted Comparative 3D Structure on P50876
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:0004842 ubiquitin-protein transferase activity
GO:0016740 transferase activity
GO:0031624 ubiquitin conjugating enzyme binding
GO:0046872 metal ion binding
GO:0061630 ubiquitin protein ligase activity

Biological Process:
GO:0000209 protein polyubiquitination
GO:0016567 protein ubiquitination
GO:0032436 positive regulation of proteasomal ubiquitin-dependent protein catabolic process

Cellular Component:
GO:0000151 ubiquitin ligase complex
GO:0005794 Golgi apparatus
GO:0005886 plasma membrane
GO:0010008 endosome membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030659 cytoplasmic vesicle membrane
GO:0031410 cytoplasmic vesicle
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  BC050373 - Homo sapiens ring finger protein 144A, mRNA (cDNA clone MGC:51874 IMAGE:5722878), complete cds.
AK293854 - Homo sapiens cDNA FLJ60099 complete cds, highly similar to Ubiquitin-conjugating enzyme 7-interacting protein 4.
D79983 - Homo sapiens KIAA0161 mRNA.
BC035051 - Homo sapiens ring finger protein 144, mRNA (cDNA clone IMAGE:5262827).
JD465420 - Sequence 446444 from Patent EP1572962.
JD173210 - Sequence 154234 from Patent EP1572962.
JD164638 - Sequence 145662 from Patent EP1572962.
JD519293 - Sequence 500317 from Patent EP1572962.
JD230643 - Sequence 211667 from Patent EP1572962.
JD353472 - Sequence 334496 from Patent EP1572962.
JD297865 - Sequence 278889 from Patent EP1572962.
CU690652 - Synthetic construct Homo sapiens gateway clone IMAGE:100021332 5' read RNF144A mRNA.
EU446751 - Synthetic construct Homo sapiens clone IMAGE:100070358; IMAGE:100011960; FLH257221.01L ring finger protein 144 (RNF144) gene, encodes complete protein.
AB383776 - Synthetic construct DNA, clone: pF1KSDA0161, Homo sapiens RNF144A gene for ubiquitin-conjugating enzyme 7-interacting protein 4, complete cds, without stop codon, in Flexi system.
KJ898090 - Synthetic construct Homo sapiens clone ccsbBroadEn_07484 RNF144A gene, encodes complete protein.
JD173302 - Sequence 154326 from Patent EP1572962.
JD056540 - Sequence 37564 from Patent EP1572962.
JD354728 - Sequence 335752 from Patent EP1572962.
JD120115 - Sequence 101139 from Patent EP1572962.
JD291515 - Sequence 272539 from Patent EP1572962.
JD287223 - Sequence 268247 from Patent EP1572962.
JD233301 - Sequence 214325 from Patent EP1572962.
JD498659 - Sequence 479683 from Patent EP1572962.
JD317092 - Sequence 298116 from Patent EP1572962.
JD153494 - Sequence 134518 from Patent EP1572962.
JD298586 - Sequence 279610 from Patent EP1572962.
JD165360 - Sequence 146384 from Patent EP1572962.
JD349548 - Sequence 330572 from Patent EP1572962.
JD231403 - Sequence 212427 from Patent EP1572962.
JD217000 - Sequence 198024 from Patent EP1572962.
JD292886 - Sequence 273910 from Patent EP1572962.
JD477232 - Sequence 458256 from Patent EP1572962.
JD296848 - Sequence 277872 from Patent EP1572962.
JD287253 - Sequence 268277 from Patent EP1572962.
JD502260 - Sequence 483284 from Patent EP1572962.
JD297509 - Sequence 278533 from Patent EP1572962.
JD083441 - Sequence 64465 from Patent EP1572962.
JD351415 - Sequence 332439 from Patent EP1572962.
JD357424 - Sequence 338448 from Patent EP1572962.
JD526673 - Sequence 507697 from Patent EP1572962.
JD158379 - Sequence 139403 from Patent EP1572962.
JD290921 - Sequence 271945 from Patent EP1572962.
JD090515 - Sequence 71539 from Patent EP1572962.
JD497335 - Sequence 478359 from Patent EP1572962.
JD437820 - Sequence 418844 from Patent EP1572962.
JD521547 - Sequence 502571 from Patent EP1572962.
JD154751 - Sequence 135775 from Patent EP1572962.
JD550049 - Sequence 531073 from Patent EP1572962.
JD377841 - Sequence 358865 from Patent EP1572962.
JD123643 - Sequence 104667 from Patent EP1572962.
JD358520 - Sequence 339544 from Patent EP1572962.
JD108959 - Sequence 89983 from Patent EP1572962.
JD484500 - Sequence 465524 from Patent EP1572962.
JD433602 - Sequence 414626 from Patent EP1572962.
JD354297 - Sequence 335321 from Patent EP1572962.
JD349615 - Sequence 330639 from Patent EP1572962.
JD239538 - Sequence 220562 from Patent EP1572962.
JD224486 - Sequence 205510 from Patent EP1572962.
JD458321 - Sequence 439345 from Patent EP1572962.
JD457652 - Sequence 438676 from Patent EP1572962.
JD429438 - Sequence 410462 from Patent EP1572962.
JD539879 - Sequence 520903 from Patent EP1572962.
JD260397 - Sequence 241421 from Patent EP1572962.
JD363947 - Sequence 344971 from Patent EP1572962.
JD493487 - Sequence 474511 from Patent EP1572962.
JD449119 - Sequence 430143 from Patent EP1572962.
JD131961 - Sequence 112985 from Patent EP1572962.
JD305801 - Sequence 286825 from Patent EP1572962.
JD314724 - Sequence 295748 from Patent EP1572962.
JD248851 - Sequence 229875 from Patent EP1572962.
JD206050 - Sequence 187074 from Patent EP1572962.
JD282534 - Sequence 263558 from Patent EP1572962.
JD558445 - Sequence 539469 from Patent EP1572962.
JD202464 - Sequence 183488 from Patent EP1572962.
JD433448 - Sequence 414472 from Patent EP1572962.
JD433449 - Sequence 414473 from Patent EP1572962.
JD301116 - Sequence 282140 from Patent EP1572962.
JD295926 - Sequence 276950 from Patent EP1572962.
JD295927 - Sequence 276951 from Patent EP1572962.
JD547161 - Sequence 528185 from Patent EP1572962.
JD226414 - Sequence 207438 from Patent EP1572962.
JD226415 - Sequence 207439 from Patent EP1572962.
JD253216 - Sequence 234240 from Patent EP1572962.
JD380798 - Sequence 361822 from Patent EP1572962.
JD263903 - Sequence 244927 from Patent EP1572962.
JD505539 - Sequence 486563 from Patent EP1572962.
JD343011 - Sequence 324035 from Patent EP1572962.
JD494412 - Sequence 475436 from Patent EP1572962.
JD271205 - Sequence 252229 from Patent EP1572962.
JD171832 - Sequence 152856 from Patent EP1572962.

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

Protein P50876 (Reactome details) participates in the following event(s):

R-HSA-8938770 RNF144A binds PRKDC and Ubiquitin:UBE2L3
R-HSA-8866654 E3 ubiquitin ligases ubiquitinate target proteins
R-HSA-8852135 Protein ubiquitination
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: D6W4Y6, ENST00000320892.1, ENST00000320892.10, ENST00000320892.2, ENST00000320892.3, ENST00000320892.4, ENST00000320892.5, ENST00000320892.6, ENST00000320892.7, ENST00000320892.8, ENST00000320892.9, KIAA0161, NM_014746, P50876, Q585H5, R144A_HUMAN, RNF144, UBCE7IP4, uc317qys.1, uc317qys.2
UCSC ID: ENST00000320892.11_4
RefSeq Accession: NM_014746.6
Protein: P50876 (aka R144A_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.