introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

6 rows where transcript_id = 22411767

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
121675073 GT-AG 0 1.000000099473604e-05 158 rna-gnl|WGS:JAEPRB|INT45_00000070-RA 22411767 1 238477 238634 Mucor circinatus 2054153 GTT|GTAAGTGAAT...ATATTATTAACA/ACATTATTAATT...TCTAG|ATG 1 1 14.255
121675074 GT-AG 0 0.0015360266719763 125 rna-gnl|WGS:JAEPRB|INT45_00000070-RA 22411767 2 238962 239086 Mucor circinatus 2054153 TTG|GTATGTGTTT...TTATCATTATCT/ATCATTATCATT...TTTAG|GTC 1 1 49.303
121675075 GT-AG 0 0.0016164204966695 83 rna-gnl|WGS:JAEPRB|INT45_00000070-RA 22411767 3 239161 239243 Mucor circinatus 2054153 CAG|GTATATATAT...TTTATTTTAAAA/ATAATTTTTAAT...GTAAG|GTT 0 1 57.235
121675076 GT-AG 0 0.0041329734593066 81 rna-gnl|WGS:JAEPRB|INT45_00000070-RA 22411767 4 239324 239404 Mucor circinatus 2054153 CAG|GTATACATAG...TGTATATTAAAG/AAAATAATTATT...AATAG|TCC 2 1 65.809
121675077 GT-AG 0 3.718080716823154e-05 81 rna-gnl|WGS:JAEPRB|INT45_00000070-RA 22411767 5 239460 239540 Mucor circinatus 2054153 ACT|GTAAGTCTGA...GAAAATTTAATT/GAAAATTTAATT...ACTAG|GTC 0 1 71.704
121675078 GT-AG 0 1.000000099473604e-05 80 rna-gnl|WGS:JAEPRB|INT45_00000070-RA 22411767 6 239738 239817 Mucor circinatus 2054153 TTG|GTAAAGTATT...TAAATATTAATT/TAAATATTAATT...ATTAG|TGA 2 1 92.819

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);