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 = 15374526

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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
83326740 GT-AG 0 0.0046312599954489 75 rna-gnl|WGS:QKYT|C1645_mRNA811032 15374526 1 132511 132585 Glomus cerebriforme 658196 CAA|GTATGTTTAT...ATCGCGTTACTA/GCGTTACTAATT...TTTAG|AAC 2 1 39.427
83326741 GT-AG 0 0.097310428231346 72 rna-gnl|WGS:QKYT|C1645_mRNA811032 15374526 2 132322 132393 Glomus cerebriforme 658196 CCA|GTATGTATCA...TTCTTTTTAATT/TTCTTTTTAATT...ATTAG|GAA 2 1 49.91
83326742 GT-AG 0 1.2289885931668962e-05 67 rna-gnl|WGS:QKYT|C1645_mRNA811032 15374526 3 132177 132243 Glomus cerebriforme 658196 CAA|GTAAGTATAA...AATTTTTTATTA/AAATTTTTTATT...TTTAG|GCA 2 1 56.9
83326743 GT-AG 0 1.489063669832154e-05 75 rna-gnl|WGS:QKYT|C1645_mRNA811032 15374526 4 131938 132012 Glomus cerebriforme 658196 CAG|GTAAATTAAA...TTCATTTTAATT/TAATTATTTACT...TAAAG|ATG 1 1 71.595
83326744 GT-AG 0 0.0011576212727097 74 rna-gnl|WGS:QKYT|C1645_mRNA811032 15374526 5 131588 131661 Glomus cerebriforme 658196 AAT|GTAAGTTTTT...TAATTTTTATTT/TTTTTATTTATT...AATAG|ATT 1 1 96.326
83326745 GT-AG 0 0.000411025339392 107 rna-gnl|WGS:QKYT|C1645_mRNA811032 15374526 6 131458 131564 Glomus cerebriforme 658196 ATG|GTCTGTTCGA...GAAACTTTAATC/TCCTTTTTTATT...CATAG|TTA 0 1 98.387

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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]);