List of permitted loci
DAFF Taxonomic assignment workflow

This page lists permitted values for the locus field in the metadata.csv input file. Many of these loci are synonyms for the same target - it does not matter which synonym is specified as the input.

For virus queries and workflow runs using the BOLD database, the locus field is not required. In these cases, you should set this field to NA.

These values describe the default loci.json file that is defined in the workflow. It is possible for administrators to replace this with a custom file. If this might the case, please request a list of allowed loci from your service administrator.

• 16s
• 16s rrna
• 16s mitochondrial rrna
• 16s ribosomal rna
• 28s
• 28s rrna
• 28s ribosomal rna
• act
• actin
• alt-a1
• alt a1
• ß-tub
• beta-tubulin
• β-tubulin
• cmda
• cinnamoyl-coa reductase
• co2
• coii
• cytochrome oxidase subunit 2
• coi
• co1
• cox
• cox1
• cytochrome oxidase subunit 1
• cytb
• cytochrome b
• dnax
• dna polymerase iii subunit tau
• dna polymerase iii subunit gamma
• ef1a
• ef-1a
• elongation factor 1-alpha
• ef-g
• fusa
• elongation factor g
• gapa
• g3pdh
• gapdh
• glyceraldehyde-3-phosphate dehydrogenase
• gyrb
• gyrase b
• hsp60
• heat shock protein 60
• its
• internal transcribed spacer
• its1
• internal transcribed spacer 1
• its2
• internal transcribed spacer 2
• leus
• leucyl-trna synthetase
• lsu
• lsu rrna
• large subunit ribosomal rna
• rrna large subunit 28s
• rrna large subunit 23s
• matk
• maturase k
• rbcl
• rubisco
• ribulose-1,5-bisphosphate carboxylase/oxygenase
• recn
• dna repair protein recn
• reca
• recombinase a
• rpob
• rna polymerase subunit ß
• rna polymerase subunit beta
• rplb
• ribosomal protein l2
• rpod
• rna polymerase sigma factor
• rpb2
• rna polymerase ii subunit b