MITOCARTA3.0 DOCUMENTATION

Symbol Entrez official gene symbol
Description Entrez gene description
Synonyms Entrez gene synonyms as well as UniProt identifier, if available, and NCBI Entrez Gene ID
Maestro Score Integrated score of mitochondrial localization. Score of 5.22 (human) or 5.30 (mouse) indicates 5% cFDR cutoff, but genes with literature or GFP support may have lower scores.
Evidence Evidence of mitochondrial localization.
Note: a data source is listed as evidence of mitochondrial localization if LogOdds>1 (based on training data); "+" suffix indicates strong support (LogOdds>5), and "++" suffix indicates very strong support (LogOdds>7).
  • literature: manually curated list of genes encoding proteins with strong support of mitochondrial localization in mammals from literature (not including previous large-scale proteomic studies)
  • manual: manually curated list of genes with strong likelihood of mitochondial localization based on a combination of literature and paralogy to known mitochondrial proteins
  • APEX_matrix: detected in the mitochondrial matrix in HEK293 cells based on APEX labeling [Rhee et al., Science 2013 PMID:23371551]
  • APEX_IMS: detected in the mitochondrial intermembrane space in HEK293 cells based on APEX labeling [Hung et al., Mol Cell 2014 PMID:25002142]
  • GFP: mitochondrial localization observed by GFP-tagging and low-resolution microscopy in our 2008 study.  We note that now higher resolution microscopy is available for some of these genes from Human Protein Atlas and primary literature, which may provide more accurate localization
  • targetP signal: mitochondrial targeting signal present in N-terminal 130 aa, based on targetP
  • yeast mito homolog: best S. cerevisiase homolog, based on BlastP, is a curated mitochondrial gene
  • Rickettsial homolog: gene has a homolog to R. prowazekii based on BlastP (with expect < 1e-3) or jackHMMER reciprocal hit
  • mito protein domain: protein has a mitochondrial-specific Pfam domain (++ suffix), or Pfam domain present in both mitochondrial and non-mitochondrial proteins (no suffix)
  • induction: mouse transcript was induced during mitochondrial biogenesis
  • coexpression: mouse transcript is coexpressed with known mitochondrial genes across mouse tissues (+ and ++ indicate higher levels of coexpression)
  • MS/MS: mouse protein detected with high confidence in mitochondrial samples from 14 tissues (+ and ++ indicate higher confidence of detection)
Sub-Compartment Manual annotation to most likely compartment: matrix, inner membrane (MIM), intermembrane space (IMS), outer membrane (MOM), mitochondrial membrane, or unknown. Annotations are based on a manual integration of literature, sequence features (targeting signal, transmembrane helices), and experimental data (APEX_matrix, APEX_IMS, APEX_MOM). Note that all members of membrane complexes are assigned the membrane compartment (eg all subunits of complex V including matrix-facing subunits are assigned MIM, and all subunits of the calcium uniplex including IMS-facing subunits are assigned MIM).  Nearly all genes are assigned to the single most relevant sub-compartment, but several genes were assigned to multiple compartments (separated by | symbols).  
MitoPathways Manual annotation to a hierarchy of 149 biological pathways, based on literature. Genes may be assigned to multiple pathways (separated by semicolon), and each pathway is part of a hierarchy (separated by > symbols)
Tissues Protein detected by discovery MS/MS within 14 mouse tissues analyzed: cerebrum, cerebellem, brainstem, spinal cord, liver, kidney, heart, skeletal muscle, adipose, stomach, sm intestine, lg intestine, testis, placenta