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 = 19668008

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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
105497731 GT-AG 0 0.0140548948926567 151 rna-KI688_000378 19668008 1 1410587 1410737 Linnemannia hyalina 64524 AAC|GTATGTTCCC...TTTTTGTTGATT/TTTTTGTTGATT...TGTAG|GCG 0 1 2.041
105497732 GT-AG 0 0.0001431227326908 94 rna-KI688_000378 19668008 2 1409650 1409743 Linnemannia hyalina 64524 AAG|GTACTTTACG...TCTGTATTAATT/TCTGTATTAATT...TTTAG|CTT 0 1 20.54
105497733 GT-AG 0 0.0020981316046521 111 rna-KI688_000378 19668008 3 1408984 1409094 Linnemannia hyalina 64524 GGA|GTACGTTCGT...GTTTCATTGACA/TTAATACTTACA...TTTAG|GAG 0 1 32.719
105497734 GT-AG 0 0.0094957649809538 99 rna-KI688_000378 19668008 4 1408616 1408714 Linnemannia hyalina 64524 CTC|GTATGTTATT...TTATCATTTACG/GAGGTTATCATT...AATAG|GAC 2 1 38.622
105497735 GT-AG 0 1.000000099473604e-05 101 rna-KI688_000378 19668008 5 1407870 1407970 Linnemannia hyalina 64524 GGG|GTAAGTTGCC...TTTTTTTGGAAT/CGTGTACTAATG...CTTAG|ACG 2 1 52.776
105497736 GT-AG 0 1.000000099473604e-05 95 rna-KI688_000378 19668008 6 1407483 1407577 Linnemannia hyalina 64524 AAG|GTAAGCCACT...AACACTTTGATT/CTTTGATTTATT...TCTAG|TCA 0 1 59.184
105497737 GT-AG 0 1.000000099473604e-05 111 rna-KI688_000378 19668008 7 1406043 1406153 Linnemannia hyalina 64524 GAG|GTAATGTGCG...TTTTTCTTGGTT/AATTGACTAATG...AATAG|GAA 0 1 88.348

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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]);