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)

7 rows where transcript_id = 4118529

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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
21286796 GT-AG 0 1.000000099473604e-05 276 rna-XM_006675617.1 4118529 1 150950 151225 Batrachochytrium dendrobatidis 109871 CTG|GTGAGGGTCT...AATACTTTGAAT/TTTCGATTGATC...ATCAG|TCA 2 1 7.6
21286797 GT-AG 0 0.0488649989707429 127 rna-XM_006675617.1 4118529 2 150732 150858 Batrachochytrium dendrobatidis 109871 ATT|GTATGTATTT...TTGATTTTACTC/ATTTTACTCACA...CCTAG|ACA 0 1 9.984
21286798 GT-AG 0 6.806640744428538e-05 83 rna-XM_006675617.1 4118529 3 149283 149365 Batrachochytrium dendrobatidis 109871 AAA|GTAAATATCC...TGATTTTTAAAA/GGATTACTGATT...TTTAG|TCG 1 1 45.781
21286799 GT-AG 0 1.000000099473604e-05 62 rna-XM_006675617.1 4118529 4 147908 147969 Batrachochytrium dendrobatidis 109871 AAG|GTGAGTGTAC...AACACTTTATAG/CTGATTTTTATA...TTTAG|GAG 0 1 80.189
21286800 GT-AG 0 1.000000099473604e-05 200 rna-XM_006675617.1 4118529 5 147601 147800 Batrachochytrium dendrobatidis 109871 TAG|GTAAATTGAT...TTTATGTTGACA/TTTATGTTGACA...AACAG|TCC 2 1 82.993
21286801 GT-AG 0 1.000000099473604e-05 120 rna-XM_006675617.1 4118529 6 147302 147421 Batrachochytrium dendrobatidis 109871 AAG|GTGAGAGTTG...TGGGCTTTTGTA/CGTGTATTCACT...GTTAG|ATT 1 1 87.683
21286802 GT-AG 0 0.0019323978823181 101 rna-XM_006675617.1 4118529 7 146845 146945 Batrachochytrium dendrobatidis 109871 CAG|GTATGTATTC...TCATTCTTGAAT/GTTTATTTCATT...TATAG|AAT 0 1 97.013

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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]);