Data Template
Template TypeMARKER
Templatemarker
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Headers
ColumnDescription
* marker_nameName of the marker.
* marker_typeMarker type such as SSR, RFLP, RAPD, STS, SCAR, overgo probe and Isozyme. Refer to the available marker_type page for each database.
* genusThe genus name of the organism from which the marker was developed.
* speciesThe species name of the organism from which the marker was developed. Enter 'sp.' to represent one unknown species, 'spp.' to represent multiple unknown species.
aliasOther names used for the marker. Multiple aliases, separated by a semicolon (;), can be added.
marker_locusName of the marker locus. Multiple loci, separated by a semicolon (;), can be added..
marker_sequenceSequence of the marker when available. For SNP, it should be in the format of 5'flanking sequence[A/T] 3'flanking sequence.
GB_IDAssociated GenBank ID of the marker or the source of the marker (eg. EST).
dbSNP_IDAssociated dbSNP_ID. #ss number should be used.
geneAssociated genes.
mRNAAssociated mRNAs.
five_prime_flanking_seq5' flanking sequence of SNP or Indel.
three_prime_flanking_seq3' flanking sequence of SNP or Indel.
shared_speciesSpecies names of organisms that have been found to have the same SNP. If there are more than one other species, using ';' to separate.
repeat_motifRepeat motif for SSR markers.
snp_chip_nameSNP chip name when SNPs belong to a chip (the name should match 'name' in Library sheet.
snp_chip_idSNP chip ID if there is a specific ID for the specific SNP chip entered in 'SNP_chip_ID'.
restriction_enzymeRestriction Enzyme used for CAPS marker or other markers that use restriction enzymes.
product_lengthThe PCR product length from the source species of the marker.
max_lengthThe maximum product size that have been observed.
min_lengthThe minimum product size that have been observed.
is_codominantYes if the marker is codominant, No otherwise.
PCR_conditionPCR condition for PCR-based markers.
screening_methodGel type, % etc (eg. 2% agarose) for PCR product visualization and any other screening methods for other types of markers.
monomorphic_populationThe name of the mapping population of which the marker was monomorphic.
source_marker_nameThe name of the marker from which the marker is generated (STS, SSR or SCAR markers are often generated from other markers). The detail of the source marker should be given in a separate row.
source_descriptionWhether the marker was developed from the sequence of EST, BAC, cDNA, genomic clone, or WGS.
indel_seqsequences of indel (eg. ATT).
allelesAlleles for the SNP marker (eg. A/T).
gel_picture_file_nameFile name of the gel picture if available.
gel_picture_legendLegend of the gel picture if available.
commentsAny comments about the marker.
varietyThe variety from which the marker was developed. It should match a 'stock_name' in the Stock sheet.
imageImage_ID of any associated image (Detailed info in 'Image' sheet.) Multiple images, separated by comma, can be added.
contactContact person for the marker (Please provide the contact info of these researchers in 'Contact' sheet).
referenceReference where the marker is originally described (pub_id), Multiple references, separated by comma, can be added.
~idendifierSpecial columns (~) : An identifier must be either primer or probe followed by numerical number and name or seq. (e.g.) primer1_seq and primer1_name.
* Required field
cvterms
cv.namecvterm.name
MAINSNP_chip
MAINalias
MAINcomments
MAINfilename
MAINindel_seq
MAINis_codominant
MAINlegend
MAINmarker_type
MAINmax_length
MAINmin_length
MAINmonomorphic_population
MAINpcr_condition
MAINproduct_length
MAINrepeat_motif
MAINrestriction_enzyme
MAINscreening_method
MAINsource
sequenceSNP
sequenceallele
sequenceassociated_with
sequencefive_prime_flanking_region
sequencegene
sequencegenetic_marker
sequencemRNA
sequencemarker_locus
sequenceprimer
sequenceprobe
sequencethree_prime_flanking_region
relationshipadjacent_to
relationshipinstance_of