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 = 34009339

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
190421016 GT-AG 0 0.0023891302091151 124 rna-XM_035364620.1 34009339 1 875799 875922 Stegodyphus dumicola 202533 ACA|GTAAGTTACT...TGATTCTTAACT/TTAATATTGATT...TCCAG|ATA 2 1 8.228
190421017 GT-AG 0 0.0006027592893322 2353 rna-XM_035364620.1 34009339 2 873378 875730 Stegodyphus dumicola 202533 TAG|GTGACCTTTT...ATGGCATTAAAA/TCTATACTGATG...TACAG|GTC 1 1 18.987
190421018 GT-AG 0 1.000000099473604e-05 2655 rna-XM_035364620.1 34009339 3 870595 873249 Stegodyphus dumicola 202533 AAG|GTAAAATGCA...TATTTATTGAAG/TGAGTATTTATT...TGTAG|ATA 0 1 39.241
190421019 GT-AG 0 1.000000099473604e-05 1577 rna-XM_035364620.1 34009339 4 868952 870528 Stegodyphus dumicola 202533 AAG|GTAAAAAAAA...TGCCTCCTAATT/AATGTATTGATT...TATAG|GCC 0 1 49.684
190421020 GT-AG 0 1.000000099473604e-05 5412 rna-XM_035364620.1 34009339 5 863444 868855 Stegodyphus dumicola 202533 AAT|GTAAGTATGT...CTATGCTTACAT/CTTACATTCAAT...TCTAG|GTT 0 1 64.873
190421021 GT-AG 0 0.0002400041240136 3964 rna-XM_035364620.1 34009339 6 859403 863366 Stegodyphus dumicola 202533 TCG|GTAAGCATGA...ATGCCTTTAAAA/ATGCCTTTAAAA...TTCAG|AGT 2 1 77.057

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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]);