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 = 19668034

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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
105497867 GT-AG 0 0.0002705592788334 103 rna-KI688_001041 19668034 1 3708526 3708628 Linnemannia hyalina 64524 ATG|GTATGTCGCG...TTAATATTATCC/CCGTTGTTTATT...TGTAG|ATA 1 1 6.149
105497868 GT-AG 0 1.000000099473604e-05 111 rna-KI688_001041 19668034 2 3708281 3708391 Linnemannia hyalina 64524 AAC|GTAAGTAATT...GAGTTATTAATC/GAGTTATTAATC...CACAG|ATT 0 1 9.33
105497869 GT-AG 0 0.0011198499737575 94 rna-KI688_001041 19668034 3 3708106 3708199 Linnemannia hyalina 64524 AAG|GTAGACATTC...TGTCTCTTATCC/TTGTCTCTTATC...TGTAG|ATC 0 1 11.254
105497870 GT-AG 0 0.0001454975879518 106 rna-KI688_001041 19668034 4 3706509 3706614 Linnemannia hyalina 64524 TAT|GTAAGTTATG...GTATCATTGACG/ACGATATTAACT...ATTAG|GTT 0 1 46.652
105497871 GT-AG 0 0.0011028583354334 118 rna-KI688_001041 19668034 5 3706289 3706406 Linnemannia hyalina 64524 ACG|GTAACGATTA...ATTACTTTGAAC/TTTGTTGTCATT...CATAG|ACC 0 1 49.074
105497872 GT-AG 0 2.061385217792263e-05 1200 rna-KI688_001041 19668034 6 3705010 3706209 Linnemannia hyalina 64524 TGG|GTCCTTCCTC...AACTCCTTGTCC/TTCAAAATAACT...CCCAG|TCC 1 1 50.95

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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]);