Data mining on Arabidopsis thaliana Col-0 for the ARAPORT project
Enter a keyword to search for associated GO terms and genes (e.g. flowering)
Retrieve array expression data from ~100 experiments. To restrict to specific experiments, turn on the Experiment > Title selector and choose from the drop down menu. Please note that this query can potentially retrieve a large amount of data and could fail for lists of more than 1,000 genes.
Show the paralog or ortholog for a given Arabidopsis gene(s). (Data source: Panther)
Extract coding sequences (CDS) for one or more genes in FASTA format. The input search term can be a gene ID (e.g. At3G24650), or Gene Symbol (e.g. ABI3). The search also support wildcard character represented by an asterisk (e.g. ABI*).
For a gene of interest, show all known Interactions (Data Source: BioGRID and IntAct Interactions data sets).
Extract protein sequences for one or more genes in FASTA format. The input search term can be a gene ID (e.g. At3G24650), or Gene Symbol (e.g. ABI3). The search also supports wildcard character represented by an asterisk (e.g. ABI*).
Retrieve the DNA sequences in the upstream/downstream flanking region for given gene (s)
Enter a gene or a list of genes to retrieve the ontology terms
Show all the KEGG pathways associated with given gene(s).
Retrieve all alleles and germplasms of a gene of interest, and stock availability (e.g. AT1G02580, AT3G24650).
By default list all protein-coding genes in Araport11. To restrict to a specific gene or list, switch on the selector and enter the gene ID (e.g. AT1G65486) or specify a list.
Use either the InterPro identifier (e.g. IPR003441) or the short name (e.g. NAC-dom). The search is case insensitive and you can use * for approximate searches.
By default list all noncoding RNAs including miRNA, rRNA, tRNA, snoRNA, snRNA, lncRNA, NAT and ncRNA. To restrict to a specific subclass of non-coding RNAs, switch on the selector and enter the name of the subclass (e.g. rRNA).
Gene -> RNA-seq expression
retrieves the GeneRif annotation connected to the gene and the relevant publications.
List all the transposable elements in Araport11.
Retrieve all germplasms fitting a given phenotype description (e.g. embryo lethal, flowering), and stock availability .
Retrieve all germplasms carrying alleles of interest, and stock availability (e.g. abi*, abi-1).
Retrieves array expression data order by log2 ratio from ~100 experiments.
Retrieves publications directly associated with the gene. Note: ThaleMine report page for the gene also lists the publications related to the proteins products of the gene and to its GeneRIF annotation.
List all the transposable element genes in Araport11.
Transcript -> RNA-seq expression
List all the pseudogenes in Araport11.
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The Arabidopsis Information Portal is funded by a grant from the National Science Foundation (#DBI-1262414) and co-funded by a grant from the Biotechnology and Biological Sciences Research Council (BB/L027151/1)