Human Gene MRPL35 (uc002srg.4)
  Description: Homo sapiens mitochondrial ribosomal protein L35 (MRPL35), nuclear gene encoding mitochondrial protein, transcript variant 1, mRNA.
RefSeq Summary (NM_016622): Mammalian mitochondrial ribosomal proteins are encoded by nuclear genes and help in protein synthesis within the mitochondrion. Mitochondrial ribosomes (mitoribosomes) consist of a small 28S subunit and a large 39S subunit. They have an estimated 75% protein to rRNA composition compared to prokaryotic ribosomes, where this ratio is reversed. Another difference between mammalian mitoribosomes and prokaryotic ribosomes is that the latter contain a 5S rRNA. Among different species, the proteins comprising the mitoribosome differ greatly in sequence, and sometimes in biochemical properties, which prevents easy recognition by sequence homology. This gene encodes a 39S subunit protein. Sequence analysis identified three transcript variants. Pseudogenes corresponding to this gene are found on chromosomes 6p, 10q, and Xp. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr2:86,426,556-86,440,477 Size: 13,922 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr2:86,426,614-86,437,791 Size: 11,178 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:86,426,556-86,440,477)mRNA (may differ from genome)Protein (188 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeTreefamUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RM35_HUMAN
DESCRIPTION: RecName: Full=39S ribosomal protein L35, mitochondrial; Short=L35mt; Short=MRP-L35; Flags: Precursor;
SUBCELLULAR LOCATION: Mitochondrion.
SIMILARITY: Belongs to the ribosomal protein L35P family.
SEQUENCE CAUTION: Sequence=AAF64263.1; Type=Frameshift; Positions=122;

-  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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): MRPL35
CDC HuGE Published Literature: MRPL35
Positive Disease Associations: Tunica Media
Related Studies:
  1. Tunica Media
    , , . [PubMed 0]

-  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: 19.43 RPKM in Heart - Left Ventricle
Total median expression: 504.38 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 -14.6058-0.252 Picture PostScript Text
3' UTR -728.262686-0.271 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
IPR019338 - Ribosomal-L35_mit
IPR021137 - Ribosomal_L35

Pfam Domains:
PF01632 - Ribosomal protein L35

ModBase Predicted Comparative 3D Structure on Q9NZE8
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 orthologGenome BrowserGenome BrowserGenome BrowserNo ortholog
Gene Details  Gene DetailsGene Details 
Gene Sorter  Gene SorterGene Sorter 
  EnsemblFlyBaseWormBase 
  Protein SequenceProtein SequenceProtein Sequence 
  AlignmentAlignmentAlignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003735 structural constituent of ribosome

Biological Process:
GO:0006412 translation
GO:0070125 mitochondrial translational elongation
GO:0070126 mitochondrial translational termination

Cellular Component:
GO:0005622 intracellular
GO:0005739 mitochondrion
GO:0005743 mitochondrial inner membrane
GO:0005761 mitochondrial ribosome
GO:0005762 mitochondrial large ribosomal subunit
GO:0005840 ribosome


-  Descriptions from all associated GenBank mRNAs
  LF384120 - JP 2014500723-A/191623: Polycomb-Associated Non-Coding RNAs.
BC020651 - Homo sapiens mitochondrial ribosomal protein L35, mRNA (cDNA clone MGC:22314 IMAGE:4709909), complete cds.
AK314577 - Homo sapiens cDNA, FLJ95409, Homo sapiens mitochondrial ribosomal protein L35 (MRPL35), nucleargene encoding mitochondrial protein, transcript variant 2, mRNA.
AK314555 - Homo sapiens cDNA, FLJ95379, Homo sapiens mitochondrial ribosomal protein L35 (MRPL35), nucleargene encoding mitochondrial protein, transcript variant 1, mRNA.
AK074352 - Homo sapiens cDNA FLJ23772 fis, clone HEP19523.
AF208849 - Homo sapiens BM-007 mRNA, complete cds.
JD170707 - Sequence 151731 from Patent EP1572962.
AL832982 - Homo sapiens mRNA; cDNA DKFZp666C133 (from clone DKFZp666C133).
JD333120 - Sequence 314144 from Patent EP1572962.
CU676602 - Synthetic construct Homo sapiens gateway clone IMAGE:100022082 5' read MRPL35 mRNA.
HQ447678 - Synthetic construct Homo sapiens clone IMAGE:100071119; CCSB013006_01 mitochondrial ribosomal protein L35 (MRPL35) gene, encodes complete protein.
KJ898884 - Synthetic construct Homo sapiens clone ccsbBroadEn_08278 MRPL35 gene, encodes complete protein.
LF362901 - JP 2014500723-A/170404: Polycomb-Associated Non-Coding RNAs.
LF362899 - JP 2014500723-A/170402: Polycomb-Associated Non-Coding RNAs.
LF362896 - JP 2014500723-A/170399: Polycomb-Associated Non-Coding RNAs.
JD237949 - Sequence 218973 from Patent EP1572962.
LF362893 - JP 2014500723-A/170396: Polycomb-Associated Non-Coding RNAs.
JD301964 - Sequence 282988 from Patent EP1572962.
JD269111 - Sequence 250135 from Patent EP1572962.
JD074065 - Sequence 55089 from Patent EP1572962.
JD419277 - Sequence 400301 from Patent EP1572962.
JD269008 - Sequence 250032 from Patent EP1572962.
JD236571 - Sequence 217595 from Patent EP1572962.
JD228061 - Sequence 209085 from Patent EP1572962.
JD373041 - Sequence 354065 from Patent EP1572962.
JD202307 - Sequence 183331 from Patent EP1572962.
AK026220 - Homo sapiens cDNA: FLJ22567 fis, clone HSI02118.
JD362670 - Sequence 343694 from Patent EP1572962.
JD541335 - Sequence 522359 from Patent EP1572962.
JD206279 - Sequence 187303 from Patent EP1572962.
JD337902 - Sequence 318926 from Patent EP1572962.
JD463956 - Sequence 444980 from Patent EP1572962.
JD557670 - Sequence 538694 from Patent EP1572962.
JD255851 - Sequence 236875 from Patent EP1572962.
JD408586 - Sequence 389610 from Patent EP1572962.
JD212306 - Sequence 193330 from Patent EP1572962.
JD197705 - Sequence 178729 from Patent EP1572962.
JD506545 - Sequence 487569 from Patent EP1572962.
JD304221 - Sequence 285245 from Patent EP1572962.
JD308393 - Sequence 289417 from Patent EP1572962.
JD315142 - Sequence 296166 from Patent EP1572962.
LF362892 - JP 2014500723-A/170395: Polycomb-Associated Non-Coding RNAs.
JD208083 - Sequence 189107 from Patent EP1572962.
JD546575 - Sequence 527599 from Patent EP1572962.
JD067776 - Sequence 48800 from Patent EP1572962.
JD331478 - Sequence 312502 from Patent EP1572962.
JD350694 - Sequence 331718 from Patent EP1572962.
HZ481663 - JP 2015535430-A/2169: TERMINALLY MODIFIED RNA.
HZ791594 - JP 2016504050-A/3339: SIGNAL-SENSOR POLYNUCLEOTIDES FOR THE ALTERATION OF CELLULAR PHENOTYPES.
JC514326 - Sequence 4579 from Patent WO2014113089.
LF160488 - JP 2016513950-A/554: Oligomers with improved off-target profile.
LF644472 - JP 2016144439-A/63: Method for assessing cell aging.
LQ071914 - Sequence 2238 from Patent EP2964234.
LF362889 - JP 2014500723-A/170392: Polycomb-Associated Non-Coding RNAs.
MA645415 - JP 2017113010-A/3339: SIGNAL-SENSOR POLYNUCLEOTIDES FOR THE ALTERATION OF CELLULAR PHENOTYPES.
MA733299 - JP 2017140048-A/2169: TERMINALLY MODIFIED RNA.
MA405622 - WO 2018155427-A/396: A probe with reduced false positive binding, a method to desing the probe, and the use thereof.
MA619697 - JP 2018138019-A/191623: Polycomb-Associated Non-Coding RNAs.
MA598478 - JP 2018138019-A/170404: Polycomb-Associated Non-Coding RNAs.
MA598476 - JP 2018138019-A/170402: Polycomb-Associated Non-Coding RNAs.
MA598473 - JP 2018138019-A/170399: Polycomb-Associated Non-Coding RNAs.
MA598470 - JP 2018138019-A/170396: Polycomb-Associated Non-Coding RNAs.
MA598469 - JP 2018138019-A/170395: Polycomb-Associated Non-Coding RNAs.
MA598466 - JP 2018138019-A/170392: Polycomb-Associated Non-Coding RNAs.
MP015275 - Sequence 478 from Patent WO2019016252.
MA802468 - JP 2018183181-A/3339: SIGNAL-SENSOR POLYNUCLEOTIDES FOR THE ALTERATION OF CELLULAR PHENOTYPES.
MB420695 - JP 2019154320-A/63: Method for evaluating cell quality.

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

Protein Q9NZE8 (Reactome details) participates in the following event(s):

R-HSA-5389839 39S subunit binds 28S subunit:mRNA:fMet-tRNA
R-HSA-5419273 Hydrolysis of GTP and dissociation of 28S and 39S subunits
R-HSA-5389848 TUFM:GTP:aminoacyl-tRNA binds 55S ribosome:mRNA:fMet-tRNA
R-HSA-5389857 Peptide transfer from P-site to A-site (peptide bond formation)
R-HSA-5389842 TUFM hydrolyzes GTP and TUFM:GDP dissociates from 55S ribosome
R-HSA-5419261 55S ribosome with peptidyl-tRNA in A site binds GFM1:GTP
R-HSA-5419281 MRRF binds 55S ribosome:mRNA:tRNA
R-HSA-5419279 Translocation of peptidyl-tRNA from A-site to P-site (and translocation of 55S ribosome by 3 bases along mRNA)
R-HSA-5419264 MTRF1L (MTRF1a) or ICT1 binds stop codon in 55S ribosome:mRNA:peptidyl-tRNA
R-HSA-5419277 GFM2:GTP binds 55S ribosome:mRNA:tRNA:MRRF releasing mRNA and tRNA
R-HSA-5368286 Mitochondrial translation initiation
R-HSA-5419276 Mitochondrial translation termination
R-HSA-5368287 Mitochondrial translation
R-HSA-5389840 Mitochondrial translation elongation
R-HSA-72766 Translation
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: A6NKV6, B2RB93, BM-007, NM_016622, NP_057706, Q658U7, Q8WWA2, Q9NZE8, RM35_HUMAN
UCSC ID: uc002srg.4
RefSeq Accession: NM_016622
Protein: Q9NZE8 (aka RM35_HUMAN)
CCDS: CCDS1988.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_016622.3
exon count: 4CDS single in 3' UTR: no RNA size: 3323
ORF size: 567CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 997.00frame shift in genome: no % Coverage: 99.64
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 2741# 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.