[Gmod-gene-page] Arabidopsis Gene Info

[Leonore R. <lr...@ac...>]

Ok here is something of a wish list- I've asterisked ones that at a
minimum should be there since of course, what we know/ can show depends
upon the available data. I concur with Stacia that all assertions should
be supported with tracable evidence/methodologies. I also dont mean to
imply that every MOD should physically store all of the information
presented here. For example, TAIR does not store information/alignments for homology but does link to this
information in other databases. But if the information is available...be
nice to find. I wonder if it helps to distinguish between minimal
information for a SEQUENCED locus vs. GENETICALLY defined. For now- Ill
assume were are talking about sequenced genes and not single
recessive mutants or QTLs.
-Leonore Reiser

Locus Info*
	Systematic Locus Identifier*
	Gene Name*
	Gene Alias(es)*
	Gene Model Type (e.g. protein coding, miRNA, unknown...etc.)*
	Physical/Genetic Linkage Map Location (chromosome, coordinates)*
	Summary/Brief Description*
	Annotated Sequence (gene features annotated + EVIDENCE* that is
-is the structure experimentally verified or predicted and what is the
evidence)
	History

Function/Biological Role/Expression/Localization
	GO Annotations
	Gene Expression Data (Microarray, EST, SAGE, MPSS, in-situ, etc..)
	(supra- cellular) Localization (immunohistochemistry, GFP/YFP)


Alleles and Phenotypes
	Sequence Variation (nt sequence [C->A at 2344 bp] and coding
sequence change[ e.g.nonsense mutation at AA 467])
	Variation Type:(e.g. insertion, deletion, etc..)
	Mutagen: e.g. EMS, RNAi et...
	Type: e.g. hypermorph, neomorph,etc..
	Phenotype

Pathways and Interactions
	Genetic Pathways
	Metabolic Pathways
	Signaling Pathways
	Interacting Partners (binds to DNA/binds to Protein/modifies X)

Protein *
	Sequence*
	Domains/Motifs*
	Post-translational modifications
	Tryptic Digest Patterns
	pI*
	Molecular Weight*
	Homologies*

Reagents
	Clones
	Antibodies
	Strains (e.g. seed stocks)

Literature
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Leonore Reiser, Ph.D.                   lr...@ac...
The Arabidopsis Information Resource	FAX: (650) 325-6857
Carnegie Institution of Washington	Tel: (650) 325-1521 ext. 311
Department of Plant Biology		URL: http://arabidopsis.org/
260 Panama St.
Stanford, CA 94305
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