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The Mouse Adult Gross Anatomy Ontology and Mammalian Phenotype Ontology are downloaded weekly from the Mouse Genome Informatics databases at Jackson Laboratories ( For more information about these ontologies, see the MGI Publications Page at

Term:abnormal substantia nigra pars compacta morphology
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Accession:MP:0013219 term browser browse the term
Definition:any structural anomaly of the posterior (dorsal) part of grey matter of the substantia nigra which contains large, polygonal, and densely packed dopamine-producing cells; pars compacta neurons are pigmented in many species
Synonyms:exact_synonym: abnormal SNPC morphology;   abnormal compact part of substantia nigra;   abnormal pars compacta substantiae nigrae morphology

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abnormal substantia nigra pars compacta morphology term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atg7 autophagy related 7 IAGP MGI PMID:23152632 NCBI chr 6:114,620,075...114,837,565
Ensembl chr 6:114,620,058...114,837,575
JBrowse link
G Bdnf brain derived neurotrophic factor IAGP MGI PMID:15987955 NCBI chr 2:109,505,045...109,557,388
Ensembl chr 2:109,505,045...109,557,352
JBrowse link
G Cntnap4 contactin associated protein-like 4 IAGP MGI PMID:32194851 NCBI chr 8:113,296,523...113,609,339
Ensembl chr 8:113,296,675...113,609,349
JBrowse link
G En1 engrailed 1 IAGP MGI PMID:23152632 NCBI chr 1:120,530,216...120,535,720
Ensembl chr 1:120,530,147...120,535,721
JBrowse link
G H2az2 H2A.Z histone variant 2 IAGP MGI PMID:15987955 NCBI chr11:6,377,226...6,394,511
Ensembl chr11:6,377,229...6,394,443
JBrowse link
G Hyou1 hypoxia up-regulated 1 IAGP MGI PMID:17116640 NCBI chr 9:44,290,787...44,303,666
Ensembl chr 9:44,290,787...44,303,666
JBrowse link
G Il6 interleukin 6 IAGP MGI PMID:12358740 NCBI chr 5:30,218,112...30,224,973
Ensembl chr 5:30,218,112...30,224,979
JBrowse link
G Kcnj6 potassium inwardly-rectifying channel, subfamily J, member 6 IAGP MGI PMID:7062116 PMID:9023358 NCBI chr16:94,545,839...94,798,719
Ensembl chr16:94,549,495...94,798,560
JBrowse link
G Mfn2 mitofusin 2 IAGP MGI PMID:22914740 NCBI chr 4:147,958,043...147,989,527
Ensembl chr 4:147,958,056...147,989,161
JBrowse link
G Park7 Parkinson disease (autosomal recessive, early onset) 7 IAGP MGI PMID:23019375 NCBI chr 4:150,981,590...150,994,378
Ensembl chr 4:150,981,590...150,998,894
JBrowse link
G Pitx3 paired-like homeodomain transcription factor 3 IAGP MGI PMID:12829322 NCBI chr19:46,123,720...46,136,764
Ensembl chr19:46,124,124...46,136,765
JBrowse link
G Pla2g6 phospholipase A2, group VI IAGP MGI PMID:30088174 NCBI chr15:79,170,428...79,212,915
Ensembl chr15:79,170,428...79,212,590
JBrowse link
G Prkn parkin RBR E3 ubiquitin protein ligase IAGP MGI PMID:17116640 NCBI chr17:11,059,227...12,282,257
Ensembl chr17:11,059,271...12,282,248
JBrowse link
G Pten phosphatase and tensin homolog IAGP MGI PMID:19750226 NCBI chr19:32,734,977...32,803,560
Ensembl chr19:32,734,897...32,803,560
JBrowse link
G Slc6a3 solute carrier family 6 (neurotransmitter transporter, dopamine), member 3 IAGP MGI PMID:19750226 PMID:22914740 PMID:23152632 NCBI chr13:73,684,270...73,726,791
Ensembl chr13:73,684,866...73,726,791
JBrowse link

Term paths to the root
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  mammalian phenotype 16101
    nervous system phenotype 4401
      abnormal nervous system morphology 3499
        abnormal brain morphology 2158
          abnormal forebrain morphology 1301
            abnormal basal ganglion morphology 157
              abnormal substantia nigra morphology 34
                abnormal substantia nigra pars compacta morphology 15
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