Salvia miltiorrhiza · Red sage
An integrated database portal for the Salvia miltiorrhiza reference genome, functional annotations, expression atlas, variant resources, regulatory prediction, protein localization, domains, and interaction networks.
High-use sequence search for Genome, cDNA, CDS, and Protein databases with adjustable E-value, identity, query coverage, word size, and low-complexity filtering.
Integrated view of identifiers, coordinates, sequences, annotations, subcellular localization, and downloads.
Search across standard IDs, NCBI Gene IDs, GeneID, locus tags, transcript IDs, and protein IDs.
Browse reviewed article accessions, sequence alignments, current LOC/SmilChr IDs, and website predictions with experimental and computational evidence kept separate.
Records: 27 Current loci: 23Currently uses GFF-derived annotations and reserves GO, KEGG, Pfam, InterPro, eggNOG, and NR fields.
Paste Red Sage gene IDs to summarize GO/KEGG annotations by gene and generate enrichment results for gene sets.
Status: AvailablePfam-A and HMMER hmmscan results with protein domain schematics and amino-acid start/end coordinates.
Status: AvailableSearch Red Sage genes by Pfam ID, domain name, or description to identify family members.
Status: AvailableExtract interval sequences, list genes in a region, and generate basic PCR primer candidates.
Paste a DNA or FASTA sequence to generate PCR primer candidates with product size, Tm, and GC%.
Detect common restriction sites in a vector, select one or two sites, and generate homologous recombination primers by target Tm.
Translate CDS, cDNA, or FASTA nucleotide sequences into proteins and calculate protein length and theoretical mass in kDa.
Query the 10-20 most likely interaction partners by gene ID, or score a pair of CDS/protein sequences.
Status: AvailableLocPro predictions for the Salvia miltiorrhiza proteome; top 5 locations are shown per query.
Status: AvailableQuery gene expression by study and condition, with TPM bar charts and error bars.
Status: AvailableCalculate expression correlations and return the most correlated co-expressed candidate genes with caching.
Status: AvailableSearch Red Sage candidate homologs in Arabidopsis and rice, with BLASTP evidence, gene neighborhoods, and MCScan synteny-ready context.
Status: AvailableScan submitted sequences or precomputed 4000 bp upstream promoters with Red Sage TF motifs.
Status: AvailableEnter a TF ID, protein ID, motif ID, or TF family to query precomputed promoter binding sites and target genes.
Status: AvailableSearch curated Red Sage EMS CDS variants and LoF candidates by gene, sample, or genomic interval.
Status: AvailableExplore EMS rare-variant associations aggregated by gene, promoter, or window, with PC1–PC3 adjustment and permutation tests.
Phenotype1 Aggregate association CandidatesBrowse the Red Sage reference genome and GFF3 gene models, with direct coordinate jumps from Gene Cards.
Status: AvailableDownload genome, GFF, cDNA, CDS, protein FASTA, and ID mapping files.