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 = 9148249

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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
49648025 GT-AG 0 1.000000099473604e-05 46 rna-gnl|WGS:JXYT|CONCODRAFT_mRNA76574 9148249 1 426999 427044 Conidiobolus coronatus 34488 CTG|GTAATTTAAA...AAAATTTTAAAA/AATATATTAATT...TTTAG|ATT 1 1 0.325
49648026 GT-AG 0 0.0203623190242064 53 rna-gnl|WGS:JXYT|CONCODRAFT_mRNA76574 9148249 2 426646 426698 Conidiobolus coronatus 34488 ATG|GTATACAGTA...TATTTATTAACA/TATTTATTAACA...GATAG|CTG 1 1 14.272
49648027 GT-AG 0 1.000000099473604e-05 51 rna-gnl|WGS:JXYT|CONCODRAFT_mRNA76574 9148249 3 426510 426560 Conidiobolus coronatus 34488 AAG|GTAAAAAACA...CTATCTATAATA/ATATAACTAATA...ATTAG|AAA 2 1 18.224
49648028 GT-AG 0 1.601117551770841e-05 56 rna-gnl|WGS:JXYT|CONCODRAFT_mRNA76574 9148249 4 426347 426402 Conidiobolus coronatus 34488 GTG|GTAATTTAAG...TTAACCTTTGCC/TAATGCTTCATT...AATAG|ATT 1 1 23.199
49648029 GT-AG 0 1.000000099473604e-05 107 rna-gnl|WGS:JXYT|CONCODRAFT_mRNA76574 9148249 5 426178 426284 Conidiobolus coronatus 34488 AAG|GTAATACTAA...GTGATTTTAGAG/CGACTATTTACC...GATAG|GAA 0 1 26.081
49648030 GT-AG 0 3.962025922804813e-05 53 rna-gnl|WGS:JXYT|CONCODRAFT_mRNA76574 9148249 6 425912 425964 Conidiobolus coronatus 34488 AAG|GTAAATTAAC...TAATTTTTAACC/TAATTTTTAACC...CTTAG|ATT 0 1 35.983

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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]);