[Gusdev-gusdev] Re: GUS features

[Chris S. <sto...@pc...>]

Hi Matt,
I've generated a list of the 26 subclass views of NAFeatureImp and 
looked at the distinct names associated with. These are given below. 
Will now start looking at the SO and SO lite for these.
Chris

On Friday, November 22, 2002, at 12:59  PM, Matt Berriman wrote:

> Hi Chris
> Do you have a list of GUS sequence features?  The SO group are 
> preparing a "SO Lite" -- it would be good to check that everything is 
> represented.
>
> cheers
> Matt

SUBCLASS_VIEW
<BindingSiteFeature: names of binding sites>
CentromereFeature:
	predicted centromere
DNARegulatory:
	-10_signal
	-35_signal
	CAAT_signal
	GC_signal
	TATA_signal
	attenuator
	enhancer
	promoter
	terminator
DNAStructure:
	D-loop
	primer_bind
	rep_origin
ExonFeature
	ExonFeature
GeneFeature
	CDS
	GeneFeature
	gene
	snRNA
	tRNA
HexamerFeature
	hexamer
Immunoglobulin
	C-region
	D_segment
	J_segment
	N_region
	S_region
	V_region
	V_segment
	iDNA
LowComplexityNAFeature
	low complexity sequence
Miscellaneous
	misc_binding
	misc_feature
	misc_signal
	protein_bind
	stem_loop
	unsure
PolyAFeature
	PolyAFeature
PromoterFeature
	PromoterFeature
	various promoter sets
ProteinFeature	
	mat_peptide
	sig_peptide
	transit_peptide
RNAFeature
	PREDICTED REFSEQ
	PROVISIONAL REFSEQ
	REFSEQ
	REVIEWED REFSEQ
	RNAFeature
	assembly
	mRNA
RNAStructure
	RBS
	misc_RNA
RNAType
	rRNA
	scRNA
	snRNA
	tRNA
<Repeats: names of repeats>
RestrictionFragmentFeature
	RestrictionFragmentFeature
<SAGETagFeature: locations on chromosomes>
STS
	STS
ScaffoldGapFeature
	assembly gap
SeqVariation
	SNP
	allele
	conflict
	misc_difference
	misc_recomb
	modified_base
	mutation
	old_sequence
	variation
Source
	source
TandemRepeatFeature
	tandem repeat
TelomereFeature
	predicted telomere
Transcript
	3'UTR
	3'clip
	5'UTR
	5'clip
	CDS
	exon
	intron
	mRNA
	polyA_signal
	precursor_RNA
	prim_transcript