Data Template
Templatesnp_markerdownload
Headers
ColumnDescription
* marker_nameUniquename of the SNP marker. The organism ID is added at the end of the name if it has different organism.
nameName of the SNP marker.
* 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_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. The submitted SNPs (SS) number should be used.
RS_IDThe refSNP (RS) number.
geneAssociated genes.
mRNAAssociated mRNAs.
five_prime_flanking_seq5' flanking sequence of SNP or Indel.
three_prime_flanking_seq3' flanking sequence of SNP or Indel.
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_ID' must be provided.
snp_chip_idSNP chip ID if there is a specific ID for the specific SNP chip entered in 'SNP_chip_ID'. It cannot be empty if 'SNP_chip_name' is provied.
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.
indel_seqSequences of indel (eg. ATT).
allelesAlleles for the SNP marker (eg. A/T).
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.
~identifierSpecial columns to store names and sequences of primers and probes. The column name should start with ~. An identifier must be either 'primer' or 'probe' , followed by a numerical number and 'name' or 'seq'. (e.g.) primer1_name, primer1_seq, primer2_name, primner2_seq ; probe1_name, probe1_seq, probe2_name, probe2_seq (More columns can be created when there are more than two primers and probes).
##property_nameSpecial columns (##) : followed by name of the custom property.
* Required field