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 = 34283785

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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
192054417 GT-AG 0 9.305872641501685e-05 1297 rna-XM_014879514.1 34283785 1 7496305 7497601 Sturnus vulgaris 9172 CAG|GTACGCCCGG...CTCTCCATAAAT/GCATGTCTGATT...TACAG|ACA 0 1 10.769
192054418 GT-AG 0 1.5878942251168846e-05 2333 rna-XM_014879514.1 34283785 2 7493690 7496022 Sturnus vulgaris 9172 AAG|GTATGACCTA...CAATCTTTCTCT/GTTTATGTGATA...CTCAG|AGT 0 1 39.692
192054419 GT-AG 0 1.000000099473604e-05 1933 rna-XM_014879514.1 34283785 3 7491666 7493598 Sturnus vulgaris 9172 TTG|GTGAGTCTGT...AATATTTTAACT/AATATTTTAACT...ATTAG|GCA 1 1 49.026
192054420 GT-AG 0 1.000000099473604e-05 309 rna-XM_014879514.1 34283785 4 7491241 7491549 Sturnus vulgaris 9172 CAG|GTATGAAGAT...TTTTCCTTTTTT/CACGACTTCAAC...TTCAG|AAA 0 1 60.923
192054421 GT-AG 0 2.835004320111795e-05 951 rna-XM_014879514.1 34283785 5 7490167 7491117 Sturnus vulgaris 9172 AAA|GTAAGCCAAA...ATTTCCTTTTTC/TCAAAACTAAAT...TGCAG|ACA 0 1 73.538
192054422 GT-AG 0 1.000000099473604e-05 962 rna-XM_014879514.1 34283785 6 7489049 7490010 Sturnus vulgaris 9172 CAG|GTAGGTTTAT...TGGTTTTTCATC/TGGTTTTTCATC...TGCAG|AAC 0 1 89.538

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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]);