40 Conserved Domain Database models. CDD 1 {"type": "domain"}
9 Density of coding genes, calculated by dividing the chromosome into 150 "bins" and counting the genes in each. (For very short chromosomes, e.g. MT, some genes contribute to multiple bins.) Coding genes (density) 1 \N
28 Dust is a program that identifies low-complexity sequences (regions of the genome with a biased distribution of nucleotides, such as a repeat). The Dust module is widely used with BLAST to prevent 'sticky' regions from determining false hits. Low complexity (Dust) 1 \N
41 CATH/Gene3D families. Gene3D 1 {"type": "domain"}
55 \N GOA annotation 0 \N
42 HAMAP families. HAMAP 1 {"type": "domain"}
37 PANTHER families. PANTHER 1 {"type": "domain"}
51 InterPro2GO mapping, defined by InterPro. InterPro2GO mapping 0 \N
10 Density of long non-coding RNA genes, calculated by dividing the chromosome into 150 "bins" and counting the genes in each. (For very short chromosomes, e.g. MT, some genes contribute to multiple bins.) Long non-coding genes (density) 1 \N
46 Intrinsically disordered regions predicted by MobiDB lite. MobiDB lite 1 {"type": "feature"}
47 Coiled-coil regions predicted by Ncoils. Coiled-coils (Ncoils) 1 {"type": "feature"}
8 Percentage of repetitive elements for top level sequences (such as chromosomes, scaffolds, etc.) Repeats (percent) 1 \N
11 Percentage of G/C bases in the sequence. GC content 1 \N
38 Protein domains and motifs from the Pfam database. Pfam 1 {"type": "domain"}
34 Protein domains and motifs from the PROSITE profiles database. PROSITE profiles 1 {"type": "domain"}
33 High confidence de novo predictions called by PSGB and EI under the frame of the 10+ genome project Genes 1 {"caption": "Genes", "colour_key": "[gene.logic_name]_[gene.biotype]", "default": {"MultiBottom": "collapsed_label", "MultiTop": "gene_label", "alignsliceviewbottom": "as_collapsed_label", "contigviewbottom": "transcript_label", "contigviewtop": "gene_label", "cytoview": "gene_label"}, "key": "ensembl", "label_key": "[biotype]", "name": "Genes annotated with high confidence by PGSB"}
35 Protein domains and motifs from the PIR (Protein Information Resource) Superfamily database. PIRSF 1 {"type": "domain"}
36 Protein fingerprints (groups of conserved motifs) from the PRINTS database. Prints 1 {"type": "domain"}
7 Density of pseudogenes, calculated by dividing the chromosome into 150 "bins" and counting the genes in each. (For very short chromosomes, e.g. MT, some genes contribute to multiple bins.) Pseudogenes (density) 1 \N
27 Repeats detected using Red (REPeatDetector) Repeats: Red 1 \N
32 Repeats detected using RepeatMasker to scan non-redundant elements from several plant libraries , including REdat, TREP and RepetDB among others. Repeats: nrplants 1 \N
30 Repeats detected using the MIPS Repeat Database (REdat) using RepeatMasker. Repeats: REdat 1 \N
31 Repeats identified by RepeatMasker, using the Repbase library of repeat profiles. Repeats: Repbase 1 \N
39 Protein domains and motifs from the PROSITE patterns database. PROSITE patterns 1 {"type": "domain"}
50 Low complexity peptide sequences identified by Seg. Low complexity (Seg) 1 {"type": "feature"}
45 Structure-Function Linkage Database families. SFLD 1 {"type": "domain"}
12 Density of short non-coding RNA genes, calculated by dividing the chromosome into 150 "bins" and counting the genes in each. (For very short chromosomes, e.g. MT, some genes contribute to multiple bins.) Short non-coding genes (density) 1 \N
48 Signal peptide cleavage sites predicted by SignalP. Cleavage site (Signalp) 1 {"type": "feature"}
43 Protein domains and motifs from the SMART database. SMART 1 {"type": "domain"}
44 Protein domains and motifs from the SUPERFAMILY database. Superfamily 1 {"type": "domain"}
52 Protein domains and motifs from the TIGRFAM database. TIGRFAM 1 {"type": "domain"}
49 Transmembrane helices predicted by TMHMM. Transmembrane helices 1 {"type": "feature"}
29 Tandem Repeats Finder locates adjacent copies of a pattern of nucleotides. Tandem repeats (TRF) 1 \N