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 = 410638

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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
2418874 GT-AG 0 1.000000099473604e-05 133 rna-XM_015904936.1 410638 1 725040 725172 Acropora digitifera 70779 GAG|GTCAAGACAA...TATTCATTGAAG/AATTTATTCATT...CGCAG|AAT 0 1 9.845
2418875 GT-AG 0 2.759270351946944e-05 1652 rna-XM_015904936.1 410638 2 723337 724988 Acropora digitifera 70779 AAG|GTACAATCTA...TCTTCTTTGTTA/TTCTTTGTTATT...TGTAG|ATT 0 1 12.781
2418876 GT-AG 0 0.0070336665984328 1482 rna-XM_015904936.1 410638 3 721645 723126 Acropora digitifera 70779 AAT|GTATGTGTTC...CATTTTTTACTG/ACATTTTTTACT...CACAG|AAT 0 1 24.87
2418877 GT-AG 0 1.2277285585582195e-05 672 rna-XM_015904936.1 410638 4 720641 721312 Acropora digitifera 70779 CAG|GTACATGTAC...AACTTATTGACT/AACTTATTGACT...TTTAG|GTT 2 1 43.984
2418878 GT-AG 0 1.000000099473604e-05 421 rna-XM_015904936.1 410638 5 720131 720551 Acropora digitifera 70779 ATG|GTAAGTTCAC...TTTTTTTTGTTA/TTTTTTGTTATT...TAAAG|ACC 1 1 49.108
2418879 GT-AG 0 1.000000099473604e-05 270 rna-XM_015904936.1 410638 6 719673 719942 Acropora digitifera 70779 CAA|GTAGGGGATT...GATTCCTTTTTT/TTTTTTTGCATT...ATTAG|CAA 0 1 59.931
2418880 GT-AG 0 0.1166240561923566 481 rna-XM_015904936.1 410638 7 719031 719511 Acropora digitifera 70779 AAG|GTATCATTAG...ATTTGCTTATCT/TATTTGCTTATC...TGAAG|GAA 2 1 69.2

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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]);