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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

RPL39L Gene

protein-coding   GIFtS: 45
GCID: GC03M186839

Ribosomal Protein L39-Like

(Previous name: ribosomal protein L39-like 1)
(Previous symbol: RPL39L1)
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Ribosomal Protein L39-Like1 2     60S Ribosomal Protein L39-Like2
RPL39L11 2 3     L39-22
Ribosomal Protein L39-Like 11 2     Ribosomal Protein L39-Like Protein2
60S Ribosomal Protein L39-22 3     

External Ids:    HGNC: 170941   Entrez Gene: 1168322   Ensembl: ENSG000001639237   OMIM: 6075475   UniProtKB: Q96EH53   

Export aliases for RPL39L gene to outside databases

Previous GC identifers: GC03M183636 GC03M188095 GC03M188240 GC03M188159 GC03M188321 GC03M184243


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for RPL39L Gene:
This gene encodes a protein sharing high sequence similarity with ribosomal protein L39. Although the name of this
gene has been referred to as 'ribosomal protein L39' in the public databases, its official name is 'ribosomal
protein L39-like'. It is not currently known whether the encoded protein is a functional ribosomal protein or
whether it has evolved a function that is independent of the ribosome. (provided by RefSeq, Jul 2008)

GeneCards Summary for RPL39L Gene: 
RPL39L (ribosomal protein L39-like) is a protein-coding gene. Diseases associated with RPL39L include cervical squamous cell carcinoma, and squamous cell carcinoma. GO annotations related to this gene include structural constituent of ribosome. An important paralog of this gene is RPL39.




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000003.11  NC_018914.2  NT_005612.16  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for RPL39L
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidRPL39L promoter sequence
   Search SABiosciences Chromatin IP Primers for RPL39L

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RPL39L


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 3q27   Ensembl cytogenetic band:  3q27.3   HGNC cytogenetic band: 3q27.3

RPL39L Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RPL39L gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M186839:  view genomic region     (about GC identifiers)

Start:
186,838,736 bp from pter      End:
186,898,696 bp from pter
Size:
59,961 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: RL39L_HUMAN, Q96EH5 (See protein sequence)
Recommended Name: 60S ribosomal protein L39-like  
Size: 51 amino acids; 6293 Da
Secondary accessions: Q8IUD0

Explore the universe of human proteins at neXtProt for RPL39L: NX_Q96EH5

RPL39L Protein expression data from MOPED1, PaxDb2 and MAXQB3 : --

REFSEQ proteins: NP_443201.1  
ENSEMBL proteins: 
 ENSP00000397240   ENSP00000296277   ENSP00000389356  

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Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005622intracellular ----
GO:0005840ribosome ----
GO:0022625cytosolic large ribosomal subunit NAS12490704

RPL39L for ontologies           About GeneDecksing



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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
HGNC Gene Families: 
RPL: L ribosomal proteins

3 InterPro protein domains:
 IPR020083 Ribosomal_L39_CS
 IPR000077 Ribosomal_L39
 IPR023626 Ribosomal_L39e_dom

Graphical View of Domain Structure for InterPro Entry Q96EH5

ProtoNet protein and cluster: Q96EH5

1 Blocks protein domain: IPB000077 Ribosomal protein L39e

UniProtKB/Swiss-Prot: RL39L_HUMAN, Q96EH5
Similarity: Belongs to the ribosomal protein L39e family


RPL39L for domains           About GeneDecksing


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section

     Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0003735structural constituent of ribosome IEA--
     
RPL39L for ontologies           About GeneDecksing


Phenotypes:
     1 GenomeRNAi human phenotype for RPL39L:
 Decreased viability of wild-ty 

Animal Models:
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(Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
About This Section



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for RPL39L

STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

5/47 Interacting proteins for RPL39L (ENSP000002962774) via UniProtKB, MINT, STRING, and/or I2D (see all 47)
InteractantInteraction Details
GeneCardExternal ID(s)
RPL30ENSP000002870384STRING: ENSP00000287038
RPL4ENSP000003114304STRING: ENSP00000311430
RPL27AENSP000003460154STRING: ENSP00000346015
RPL5ENSP000003593454STRING: ENSP00000359345
SEC61GENSP000003415384STRING: ENSP00000341538
About this table

Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0006412translation IEA--
GO:0007283spermatogenesis IEP12490704

RPL39L for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
Browse Small Molecules at EMD Millipore
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Browse Tocris compounds for RPL39L (RL39L)

Search CenterWatch for drugs/clinical trials and news about RPL39L / RL39L

(Secondary structures according to fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from EMD Millipore,
siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

REFSEQ mRNAs for RPL39L gene: 
NM_052969.1  

Unigene Cluster for RPL39L:

Ribosomal protein L39-like
Hs.647900  [show with all ESTs]
Unigene Representative Sequence: BQ216858
3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000455270 ENST00000296277(uc003fre.1) ENST00000433055
miRNA
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Additional mRNA sequence: 

AB063610.1 AF548529.1 BC012328.1 L05096.1 

6 DOTS entries:

DT.91667170  DT.120840364  DT.100750125  DT.100807522  DT.99984622  DT.100741480 

24/49 AceView cDNA sequences (see all 49):

AF548529 AA460213 AW571519 BQ430980 L05096 BQ219675 AB063610 BU543807 
BI850392 AA603655 BX281758 CR603001 BG718891 BE875914 CD251962 NM_052969 
BE895146 AA383604 BG721630 BM461539 BP369804 BP370857 BG339821 BG575264 

GeneLoc Exon Structure

2 Alternative Splicing Database (ASD) splice patterns (SP) for RPL39L    About this scheme

ExUns: 1a · 1b ^ 2 ^ 3a · 3b
SP1:                              
SP2:              -               


ECgene alternative splicing isoforms for RPL39L

(RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section

RPL39L expression in normal human tissues (normalized intensities)      RPL39L embryonic expression: see
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: --
RPL39L Expression
About this image


RPL39L expression in embryonic tissues and stem cells    About this table
Data from LifeMap, the Embryonic Development and Stem Cells Database 
 5/4 selected tissues (see all 4) fully expand
 
 Testis (Reproductive System)    fully expand to see all 4 entries
         XY Germ Cells Testis Cord
         Testis Interstitium
 
 Gonad
         XY Germ Cells Testis Cord
 
 Ovary (Reproductive System)
         XX Germ Cells Ovigerous Cord
 
 Adipose (Muscoskeletal System)
         Interscapular Brown Adipose Depot

Genevestigator expression for RPL39L

SOURCE GeneReport for Unigene cluster: Hs.647900

UniProtKB/Swiss-Prot: RL39L_HUMAN, Q96EH5
Tissue specificity: Testis specific

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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RPL39L

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
About This Section

This gene was present in the common ancestor of animals and fungi.

Orthologs for RPL39L gene from 7/11 species (see all 11)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Rpl39l1 , 5 ribosomal protein L39-like1, 5 88.24(n)1
90.2(a)1
  16 (5.49 cM)5
681721  NM_026594.21  NP_080870.11 
 101702265 
chicken
(Gallus gallus)
Aves RPL396
60S ribosomal protein L39
92(a)
1 → many
4(16462841-16465105)
lizard
(Anolis carolinensis)
Reptilia --
Uncharacterized protein
90(a)
1 → many
GL343950.1(105208-107407)
zebrafish
(Danio rerio)
Actinopterygii rpl396
ribosomal protein L39
90(a)
1 → many
14(34306764-34309051)
fruit fly
(Drosophila melanogaster)
Insecta RpL396
Ribosomal protein L39
65(a)
1 → many
2R(19949376-19949952)
worm
(Caenorhabditis elegans)
Secernentea rpl-396
60S ribosomal protein L39
69(a)
1 → many
V(7775738-7776086)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes RPL396
Protein component of the large (60S) ribosomal sub...
55(a)
1 → many
X(75933-76474)


ENSEMBL Gene Tree for RPL39L (if available)
TreeFam Gene Tree for RPL39L (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
Paralogs for RPL39L gene
RPL392  
2 SIMAP similar genes for RPL39L using alignment to 1 protein entry:     RL39L_HUMAN:
RPL39    RPL39P5

RPL39L for paralogs           About GeneDecksing



(SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section

10/396 SNPs in RPL39L are shown (see all 396)    About this table     
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 3 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1444931771,2
--186838289(+) GCTTTA/CTACGC 1 -- int10--------
rs1466742071,2
--186838292(+) TTCTAC/TGCTCT 1 -- int10--------
rs1166251751,2
C,F--186838305(+) CCAGCT/CCCTTT 1 -- int11Minor allele frequency- C:0.01NA 120
rs1390929351,2
--186838309(+) CTCCTG/TTCTAT 1 -- int10--------
rs738883561,2
C,F--186838311(+) CCTTTC/TTATGC 1 -- int12Minor allele frequency- T:0.11WA 120
rs1861923601,2
--186838432(+) TGACTC/TGTGCC 1 -- int10--------
rs1914342971,2
--186838494(+) AGTGGG/TTCTCC 1 -- int10--------
rs1832195321,2
--186838576(+) TTATAC/TATCTG 1 -- int10--------
rs1440663541,2
--186838601(+) CATCTA/CTCCCT 1 -- int10--------
rs68015531,2
C,F,A,H--186838657(+) CATTAC/TCCAGG 1 -- int117Minor allele frequency- T:0.25NA EA NS WA CSA 1685

HapMap Linkage Disequilibrium report for RPL39L (186838736 - 186898696 bp)

Structural Variations
     Database of Genomic Variants (DGV) 2 variations for RPL39L:    About this table     
Variant IDTypeSubtypePubMed ID
nsv4157CNV Insertion18451855
nsv878073CNV Gain21882294

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(in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
About This Section
OMIM gene information: 607547    OMIM disorders: --

3 diseases for RPL39L:    About MalaCards
cervical squamous cell carcinoma    squamous cell carcinoma    cervicitis


RPL39L for disorders           About GeneDecksing


Export disorders for RPL39L gene to outside databases

(in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
About This Section

PubMed articles for RPL39L gene integrated from 9 sources:
(articles sorted by number of sources associating them with RPL39L)
    Utopia: connect your pdf to the dynamic
world of online information

  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
  2. Functional second genes generated by retrotransposition of the X- linked ribosomal protein genes. (PubMed id 12490704)1, 2 Uechi T.... Kenmochi N. (2002)
  3. A human gene encoding a protein homologous to ribosomal protein L39 is normally expressed in the testis and derepressed in multiple cancer cells. (PubMed id 12359333)1, 2 Nadano D.... Sato T.-A. (2002)
  4. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (2007)
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
  6. Hepatitis C virus core protein interacts with 14-3-3 protein and activates the kinase Raf-1. (PubMed id )2 Aoki H.... Hino O. (2000)

(in PubMed, OMIM, and NCBI Bookshelf)
About This Section
 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)

(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 116832 HGNC: 17094 AceView: RPL39L Ensembl:ENSG00000163923 euGenes: HUgn116832
ECgene: RPL39L H-InvDB: RPL39L

(According to HUGE)
About This Section
  --

(According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
NameDescription
PharmGKB entry for RPL39L Pharmacogenomics, SNPs, Pathways

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for RPL39L gene:
Search GeneIP for patents involving RPL39L

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
About This Section

 
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GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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(GIFtS: 73)
transforming growth factor, beta 1
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The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


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