Human Gene RPL39L (ENST00000296277.9_7) from GENCODE V47lift37

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Description: ribosomal protein L39 like (from RefSeq NM_052969.3)
Gencode Transcript: ENST00000296277.9_7
Gencode Gene: ENSG00000163923.10_10
Transcript (Including UTRs)
Position: hg19 chr3:186,838,736-186,857,284 Size: 18,549 Total Exon Count: 3 Strand: -
Coding Region
Position: hg19 chr3:186,838,933-186,839,088 Size: 156 Coding Exon Count: 1

Page Index	Sequence and Links	UniProtKB Comments	Primers	MalaCards	CTD
Gene Alleles	RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species
GO Annotations	mRNA Descriptions	Pathways	Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr3:186,838,736-186,857,284)			mRNA (may differ from genome)		Protein (51 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	Malacards	MGI	OMIM	PubMed	Reactome
UniProtKB	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: RL39L_HUMAN DESCRIPTION: RecName: Full=60S ribosomal protein L39-like; AltName: Full=60S ribosomal protein L39-2; TISSUE SPECIFICITY: Testis specific. SIMILARITY: Belongs to the ribosomal protein L39e 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: RPL39L Diseases sorted by gene-association score: lacrimal gland adenocarcinoma (2)

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene C029497 2,3-bis(3'-hydroxybenzyl)butyrolactone C532162 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide D000452 Aldrin D003375 Coumestrol D004958 Estradiol C523799 MRK 003 D013749 Tetrachlorodibenzodioxin D014212 Tretinoin D014580 Ursodeoxycholic Acid more ... click here to view the complete list

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 139.60 RPKM in Testis Total median expression: 328.57 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-160.50	376	-0.427	Picture	PostScript	Text
3' UTR	-48.10	197	-0.244	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
IPR000077 - Ribosomal_L39
IPR020083 - Ribosomal_L39_CS
IPR023626 - Ribosomal_L39e_dom

Pfam Domains:
PF00832 - Ribosomal L39 protein

SCOP Domains:
48662 - Ribosomal protein L39e

ModBase Predicted Comparative 3D Structure on Q96EH5


Front	Top	Side

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.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0003723 RNA binding GO:0003735 structural constituent of ribosome GO:0005515 protein binding Biological Process: GO:0006412 translation GO:0007283 spermatogenesis Cellular Component: GO:0005622 intracellular GO:0005840 ribosome GO:0022625 cytosolic large ribosomal subunit

Descriptions from all associated GenBank mRNAs


	L05096 - Homo sapiens ribosomal protein L39 mRNA, complete cds. AB063610 - Homo sapiens RPL39L mRNA for ribosomal protein L39-like, complete cds. BC012328 - Homo sapiens ribosomal protein L39-like, mRNA (cDNA clone MGC:20168 IMAGE:4555759), complete cds. AF548529 - Homo sapiens ribosomal protein L39-2 mRNA, complete cds. HQ447917 - Synthetic construct Homo sapiens clone IMAGE:100071273; CCSB007126_01 ribosomal protein L39-like (RPL39L) gene, encodes complete protein. KJ895324 - Synthetic construct Homo sapiens clone ccsbBroadEn_04718 RPL39L gene, encodes complete protein. JD092618 - Sequence 73642 from Patent EP1572962. JD091293 - Sequence 72317 from Patent EP1572962. JD526131 - Sequence 507155 from Patent EP1572962. JD290226 - Sequence 271250 from Patent EP1572962. JD271800 - Sequence 252824 from Patent EP1572962. JD464911 - Sequence 445935 from Patent EP1572962. JD128831 - Sequence 109855 from Patent EP1572962.

Biochemical and Signaling Pathways


	Reactome (by CSHL, EBI, and GO) Protein Q96EH5 (Reactome details) participates in the following event(s): R-HSA-72672 The 60S subunit joins the translation initiation complex R-HSA-156826 Dissociation of L13a from the 60s ribosomal subunit R-HSA-72673 Release of 40S and 60S subunits from the 80S ribosome R-HSA-72671 eIF5B:GTP is hydrolyzed and released R-HSA-156907 Aminoacyl-tRNA binds to the ribosome at the A-site R-HSA-2408529 Sec-tRNA(Sec):EEFSEC:GTP binds to 80S Ribosome R-HSA-141691 GTP bound eRF3:eRF1 complex binds the peptidyl tRNA:mRNA:80S Ribosome complex R-HSA-156915 Translocation of ribosome by 3 bases in the 3' direction R-HSA-141671 Polypeptide release from the eRF3-GDP:eRF1:mRNA:80S Ribosome complex R-HSA-156912 Peptide transfer from P-site tRNA to the A-site tRNA R-HSA-927832 UPF1 binds an mRNP with a termination codon preceding an Exon Junction Complex R-HSA-927789 Formation of UPF1:eRF3 complex on mRNA with a premature termination codon and no Exon Junction Complex R-HSA-1799332 Nascent polypeptide:mRNA:ribosome complex binds signal recognition particle (SRP) R-HSA-156923 Hydrolysis of eEF1A:GTP R-HSA-5333615 80S:Met-tRNAi:mRNA:SECISBP2:Sec-tRNA(Sec):EEFSEC:GTP is hydrolysed to 80S:Met-tRNAi:mRNA:SECISBP2:Sec and EEFSEC:GDP by EEFSEC R-HSA-141673 GTP Hydrolysis by eRF3 bound to the eRF1:mRNA:polypeptide:80S Ribosome complex R-HSA-927889 SMG1 phosphorylates UPF1 (enhanced by Exon Junction Complex) R-HSA-1799329 Signal peptidase hydrolyzes signal peptide from ribosome-associated nascent protein R-HSA-1799330 The SRP receptor binds the SRP:nascent peptide:ribosome complex R-HSA-1799326 Signal-containing nascent peptide translocates to endoplasmic reticulum R-HSA-72706 GTP hydrolysis and joining of the 60S ribosomal subunit R-HSA-156827 L13a-mediated translation R-HSA-72689 Formation of a pool of free 40S subunits R-HSA-6791226 Major pathway of rRNA processing in the nucleolus and cytosol R-HSA-1799339 SRP-dependent cotranslational protein targeting to membrane R-HSA-9010553 Regulation of expression of SLITs and ROBOs R-HSA-72737 Cap-dependent Translation Initiation R-HSA-72613 Eukaryotic Translation Initiation R-HSA-8868773 rRNA processing in the nucleus and cytosol R-HSA-156902 Peptide chain elongation R-HSA-2408557 Selenocysteine synthesis R-HSA-72764 Eukaryotic Translation Termination R-HSA-975957 Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC) R-HSA-975956 Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC) R-HSA-72766 Translation R-HSA-376176 Signaling by ROBO receptors R-HSA-192823 Viral mRNA Translation R-HSA-72312 rRNA processing R-HSA-156842 Eukaryotic Translation Elongation R-HSA-2408522 Selenoamino acid metabolism R-HSA-927802 Nonsense-Mediated Decay (NMD) R-HSA-392499 Metabolism of proteins R-HSA-422475 Axon guidance R-HSA-168273 Influenza Viral RNA Transcription and Replication R-HSA-8953854 Metabolism of RNA R-HSA-71291 Metabolism of nitrogenous molecules R-HSA-1266738 Developmental Biology R-HSA-168255 Influenza Life Cycle R-HSA-1430728 Metabolism R-HSA-168254 Influenza Infection R-HSA-5663205 Infectious disease R-HSA-1643685 Disease

Other Names for This Gene


	Alternate Gene Symbols: ENST00000296277.1, ENST00000296277.2, ENST00000296277.3, ENST00000296277.4, ENST00000296277.5, ENST00000296277.6, ENST00000296277.7, ENST00000296277.8, NM_052969, Q8IUD0, Q96EH5, RL39L_HUMAN, RPL39L , RPL39L1, uc317lsk.1, uc317lsk.2 UCSC ID: ENST00000296277.9_7 RefSeq Accession: NM_052969.3 Protein: Q96EH5 (aka RL39L_HUMAN or R39L_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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