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)

9 rows where transcript_id = 5773978

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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
29499057 GT-AG 0 1.000000099473604e-05 1048 rna-XM_020365621.2 5773978 1 14715972 14717019 Cajanus cajan 3821 ATG|GTTAGTAATG...TTTATTTTAATT/TTTATTTTAATT...TTCAG|GAT 0 1 48.75
29499058 GT-AG 0 1.000000099473604e-05 304 rna-XM_020365621.2 5773978 2 14715551 14715854 Cajanus cajan 3821 AAG|GTTTGGTTCG...TCCACATTAAAT/TACAATTTCAGT...ATCAG|GAA 0 1 52.5
29499059 GT-AG 0 1.000000099473604e-05 1354 rna-XM_020365621.2 5773978 3 14714002 14715355 Cajanus cajan 3821 ACG|GTAATGTATT...TTTATTCTGATG/TTTATTCTGATG...GACAG|GGC 0 1 58.75
29499060 GT-AG 0 0.0005551309808502 110 rna-XM_020365621.2 5773978 4 14713643 14713752 Cajanus cajan 3821 CAG|GTATTTAGTC...AAACTGTTGATC/ATTTCGTTTACA...TACAG|ATA 0 1 66.731
29499061 GT-AG 0 1.000000099473604e-05 119 rna-XM_020365621.2 5773978 5 14713455 14713573 Cajanus cajan 3821 ATG|GTGAGTGAAA...GGATACTTAAAT/AAATATATTACT...TTCAG|AAT 0 1 68.942
29499062 GT-AG 0 1.000000099473604e-05 302 rna-XM_020365621.2 5773978 6 14713005 14713306 Cajanus cajan 3821 TTG|GTATGGAACT...ATTTATTTAAAA/ATTAGATTTATT...TGCAG|GTG 1 1 73.686
29499063 GT-AG 0 0.2628380820826409 1622 rna-XM_020365621.2 5773978 7 14711234 14712855 Cajanus cajan 3821 CAG|GTATGCTTCA...ATTTCTTTATCT/CTTTTTCTTACA...TTCAG|CAT 0 1 78.462
29499064 GT-AG 0 0.0003232739136919 351 rna-XM_020365621.2 5773978 8 14710703 14711053 Cajanus cajan 3821 CAA|GTATGAGTTC...CTCCCTTTATTG/CCTTTATTGAAT...TCCAG|GCA 0 1 84.231
29499065 GT-AG 0 1.000000099473604e-05 755 rna-XM_020365621.2 5773978 9 14709750 14710504 Cajanus cajan 3821 CAG|GTAAGATTTT...ATTTCCTGACCT/CATTTCCTGACC...TGCAG|ATC 0 1 90.577

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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]);