Human Gene UBAP2L (uc001fep.4)
  Description: Homo sapiens ubiquitin associated protein 2-like (UBAP2L), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr1:154,193,325-154,243,329 Size: 50,005 Total Exon Count: 27 Strand: +
Coding Region
   Position: hg19 chr1:154,197,600-154,242,771 Size: 45,172 Coding Exon Count: 26 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:154,193,325-154,243,329)mRNA (may differ from genome)Protein (1087 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: UBP2L_HUMAN
DESCRIPTION: RecName: Full=Ubiquitin-associated protein 2-like; AltName: Full=Protein NICE-4;
TISSUE SPECIFICITY: Ubiquitous.
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR.
PTM: Acetylated.
SIMILARITY: Contains 1 UBA domain.
SEQUENCE CAUTION: Sequence=CAB65100.2; Type=Frameshift; Positions=1085;

-  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: 30.36 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 892.97 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 -42.70167-0.256 Picture PostScript Text
3' UTR -140.94558-0.253 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
IPR022166 - DUF3697_Uba2
IPR009060 - UBA-like
IPR015940 - UBA/transl_elong_EF1B_N_euk

Pfam Domains:
PF12478 - Ubiquitin-associated protein 2

SCOP Domains:
46934 - UBA-like

ModBase Predicted Comparative 3D Structure on Q14157
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 orthologGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
 Protein SequenceProtein Sequence   
 AlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003723 RNA binding
GO:0005515 protein binding

Biological Process:
GO:0007339 binding of sperm to zona pellucida
GO:0010628 positive regulation of gene expression
GO:0061484 hematopoietic stem cell homeostasis

Cellular Component:
GO:0005737 cytoplasm
GO:0031519 PcG protein complex
GO:0005671 Ada2/Gcn5/Ada3 transcription activator complex


-  Descriptions from all associated GenBank mRNAs
  D63478 - Homo sapiens mRNA for KIAA0144 gene, complete cds.
LF206193 - JP 2014500723-A/13696: Polycomb-Associated Non-Coding RNAs.
AK302662 - Homo sapiens cDNA FLJ55671 complete cds, highly similar to Ubiquitin-associated protein 2-like.
AK303533 - Homo sapiens cDNA FLJ54031 complete cds, highly similar to Ubiquitin-associated protein 2-like.
AJ243668 - Homo sapiens partial mRNA for NICE-4 protein, 5' end, clone 1056f5.
AK124294 - Homo sapiens cDNA FLJ42300 fis, clone TOVAR2002247, highly similar to Homo sapiens partial partial mRNA for NICE-4 protein.
BC003170 - Homo sapiens ubiquitin associated protein 2-like, mRNA (cDNA clone MGC:4404 IMAGE:2906083), complete cds.
LF352334 - JP 2014500723-A/159837: Polycomb-Associated Non-Coding RNAs.
AB385284 - Synthetic construct DNA, clone: pF1KA0144, Homo sapiens UBAP2L gene for ubiquitin-associated protein 2-like, complete cds, without stop codon, in Flexi system.
KJ898112 - Synthetic construct Homo sapiens clone ccsbBroadEn_07506 UBAP2L gene, encodes complete protein.
LF352331 - JP 2014500723-A/159834: Polycomb-Associated Non-Coding RNAs.
AK302953 - Homo sapiens cDNA FLJ54706 complete cds, highly similar to Ubiquitin-associated protein 2-like.
LF352330 - JP 2014500723-A/159833: Polycomb-Associated Non-Coding RNAs.
LF352326 - JP 2014500723-A/159829: Polycomb-Associated Non-Coding RNAs.
LF352325 - JP 2014500723-A/159828: Polycomb-Associated Non-Coding RNAs.
LF352324 - JP 2014500723-A/159827: Polycomb-Associated Non-Coding RNAs.
LF352323 - JP 2014500723-A/159826: Polycomb-Associated Non-Coding RNAs.
LF352319 - JP 2014500723-A/159822: Polycomb-Associated Non-Coding RNAs.
LF352309 - JP 2014500723-A/159812: Polycomb-Associated Non-Coding RNAs.
LF352308 - JP 2014500723-A/159811: Polycomb-Associated Non-Coding RNAs.
LF352307 - JP 2014500723-A/159810: Polycomb-Associated Non-Coding RNAs.
LF352306 - JP 2014500723-A/159809: Polycomb-Associated Non-Coding RNAs.
LF352305 - JP 2014500723-A/159808: Polycomb-Associated Non-Coding RNAs.
LF352304 - JP 2014500723-A/159807: Polycomb-Associated Non-Coding RNAs.
LF352302 - JP 2014500723-A/159805: Polycomb-Associated Non-Coding RNAs.
AJ243670 - Homo sapiens partial partial mRNA for NICE-4 protein, clone 3114f17.
AJ243669 - Homo sapiens partial mRNA for NICE-4 protein, 3' end, clone 1056f5.
LF352301 - JP 2014500723-A/159804: Polycomb-Associated Non-Coding RNAs.
LF352299 - JP 2014500723-A/159802: Polycomb-Associated Non-Coding RNAs.
LF209462 - JP 2014500723-A/16965: Polycomb-Associated Non-Coding RNAs.
LF328736 - JP 2014500723-A/136239: Polycomb-Associated Non-Coding RNAs.
LF352294 - JP 2014500723-A/159797: Polycomb-Associated Non-Coding RNAs.
LF328738 - JP 2014500723-A/136241: Polycomb-Associated Non-Coding RNAs.
LF352293 - JP 2014500723-A/159796: Polycomb-Associated Non-Coding RNAs.
LF352290 - JP 2014500723-A/159793: Polycomb-Associated Non-Coding RNAs.
LF352289 - JP 2014500723-A/159792: Polycomb-Associated Non-Coding RNAs.
MA587911 - JP 2018138019-A/159837: Polycomb-Associated Non-Coding RNAs.
MA587908 - JP 2018138019-A/159834: Polycomb-Associated Non-Coding RNAs.
MA587907 - JP 2018138019-A/159833: Polycomb-Associated Non-Coding RNAs.
MA587903 - JP 2018138019-A/159829: Polycomb-Associated Non-Coding RNAs.
MA587902 - JP 2018138019-A/159828: Polycomb-Associated Non-Coding RNAs.
MA587901 - JP 2018138019-A/159827: Polycomb-Associated Non-Coding RNAs.
MA587900 - JP 2018138019-A/159826: Polycomb-Associated Non-Coding RNAs.
MA587896 - JP 2018138019-A/159822: Polycomb-Associated Non-Coding RNAs.
MA587886 - JP 2018138019-A/159812: Polycomb-Associated Non-Coding RNAs.
MA587885 - JP 2018138019-A/159811: Polycomb-Associated Non-Coding RNAs.
MA587884 - JP 2018138019-A/159810: Polycomb-Associated Non-Coding RNAs.
MA587883 - JP 2018138019-A/159809: Polycomb-Associated Non-Coding RNAs.
MA587882 - JP 2018138019-A/159808: Polycomb-Associated Non-Coding RNAs.
MA587881 - JP 2018138019-A/159807: Polycomb-Associated Non-Coding RNAs.
MA587879 - JP 2018138019-A/159805: Polycomb-Associated Non-Coding RNAs.
MA587878 - JP 2018138019-A/159804: Polycomb-Associated Non-Coding RNAs.
MA587876 - JP 2018138019-A/159802: Polycomb-Associated Non-Coding RNAs.
MA564313 - JP 2018138019-A/136239: Polycomb-Associated Non-Coding RNAs.
MA587871 - JP 2018138019-A/159797: Polycomb-Associated Non-Coding RNAs.
MA564315 - JP 2018138019-A/136241: Polycomb-Associated Non-Coding RNAs.
MA587870 - JP 2018138019-A/159796: Polycomb-Associated Non-Coding RNAs.
MA587867 - JP 2018138019-A/159793: Polycomb-Associated Non-Coding RNAs.
MA587866 - JP 2018138019-A/159792: Polycomb-Associated Non-Coding RNAs.
MA441770 - JP 2018138019-A/13696: Polycomb-Associated Non-Coding RNAs.
MA445039 - JP 2018138019-A/16965: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: B4E0U8, KIAA0144, NICE4, NM_014847, NP_055662, Q14157, Q5VU75, Q5VU76, Q9BTU3, Q9UGL2, Q9UGL3, Q9UGL4, Q9UGL5, UBP2L_HUMAN
UCSC ID: uc001fep.4
RefSeq Accession: NM_014847
Protein: Q14157 (aka UBP2L_HUMAN or UP2L_HUMAN)
CCDS: CCDS1063.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_014847.3
exon count: 27CDS single in 3' UTR: no RNA size: 4006
ORF size: 3264CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 6720.50frame shift in genome: no % Coverage: 99.58
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.