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)

5 rows where transcript_id = 14393852

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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
76886632 GT-AG 0 1.000000099473604e-05 4062 rna-XM_010161642.1 14393852 1 43472 47533 Eurypyga helias 54383 TGG|GTAAGGTGGT...TCCTCTTTTTCT/TCTCTTCTGATG...GCCAG|GCT 2 1 12.242
76886633 GT-AG 0 1.000000099473604e-05 24840 rna-XM_010161642.1 14393852 2 18510 43349 Eurypyga helias 54383 GAG|GTCAGTTGGG...AGTTCTTTAATT/AGTTCTTTAATT...CCCAG|ACA 1 1 29.023
76886634 GT-AG 0 1.000000099473604e-05 3521 rna-XM_010161642.1 14393852 3 14921 18441 Eurypyga helias 54383 ATG|GTAGGTGCCG...TTTCTCTTCTTT/ACAAAACTGATT...CAAAG|GAA 0 1 38.377
76886635 GT-AG 0 9.038871879807792e-05 9415 rna-XM_010161642.1 14393852 4 5285 14699 Eurypyga helias 54383 GAG|GTACGTTTGT...TGTGTTTTGTCT/TTTGCTATCATG...TGTAG|GCT 2 1 68.776
76886636 GT-AG 0 2.9269177699649883e-05 3589 rna-XM_010161642.1 14393852 5 1613 5201 Eurypyga helias 54383 GCT|GTAAGTACCC...TCTTCTTTCTCC/ACAAGCCTCATT...CACAG|ATG 1 1 80.193

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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]);