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 = 36995193

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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
204419053 GT-AG 0 1.000000099473604e-05 45 rna-XM_038842077.1 36995193 1 3397547 3397591 Tripterygium wilfordii 458696 ATT|GTTCAAGAGA...ATTTTTCTAGTT/ATGGTGTTGAAA...GACAG|GCT 0 1 81.102
204419054 GT-AG 0 2.437634612176416e-05 64 rna-XM_038842077.1 36995193 2 3397722 3397785 Tripterygium wilfordii 458696 ATG|GTCTAGTGTA...TTTGCTTTGTTT/TCTGGTTGTATT...TTTAG|GTG 1 1 84.514
204419055 GT-AG 0 0.7095676971323681 1948 rna-XM_038842077.1 36995193 3 3397853 3399800 Tripterygium wilfordii 458696 ATT|GTATTCTAAT...AAACCTTTAAAC/AACATCTTTACA...TGTAG|GAG 2 1 86.273
204419056 GT-AG 0 0.0001230129202029 77 rna-XM_038842077.1 36995193 4 3399876 3399952 Tripterygium wilfordii 458696 TAT|GTATGAAAAT...GGTGTTTTAGTA/AAACATTTCATT...TGCAG|TTT 2 1 88.241
204419057 GT-AG 0 1.1138356389949493e-05 143 rna-XM_038842077.1 36995193 5 3400035 3400177 Tripterygium wilfordii 458696 ATT|GTGATTTCTG...TACAACTTAGTT/ACTTAGTTTATT...TTAAG|ATA 0 1 90.394
204419058 GT-AG 0 1.000000099473604e-05 81 rna-XM_038842077.1 36995193 6 3400265 3400345 Tripterygium wilfordii 458696 AAG|GTTGTGAACT...TATTTTTTATTG/ATATTTTTTATT...TATAG|ATG 0 1 92.677
204419059 GT-AG 0 1.000000099473604e-05 64 rna-XM_038842077.1 36995193 7 3400402 3400465 Tripterygium wilfordii 458696 TCG|GTGTTAGTGA...ATGAAGTTGATA/ATGAAGTTGATA...CTCAG|ACT 2 1 94.147

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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]);