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 = 15495782

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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
83762519 GT-AG 0 1.388791925600132e-05 1096 rna-XM_041010917.1 15495782 1 45235634 45236729 Glycine max 3847 CGA|GTCAGTTTCT...CTGTATTTAACT/CTGTATTTAACT...GTTAG|GTT 2 1 2.999
83762520 GT-AG 0 1.000000099473604e-05 164 rna-XM_041010917.1 15495782 2 45235306 45235469 Glycine max 3847 GAG|GTTAGATTTC...TGTCCCTTTGCT/CCTTTGCTAATT...TGCAG|GGA 1 1 6.171
83762521 GT-AG 0 9.453025042470698e-05 87 rna-XM_041010917.1 15495782 3 45235095 45235181 Glycine max 3847 TAA|GTATGAGCTG...GGATTTTTGAAA/GGATTTTTGAAA...TAAAG|GTT 2 1 8.57
83762522 GT-AG 0 1.3017966634027929e-05 124 rna-XM_041010917.1 15495782 4 45234841 45234964 Glycine max 3847 AAG|GTACAAATTT...GAATACTTAATT/TAATTTTTCATT...TCCAG|CTG 0 1 11.085
83762523 GT-AG 0 0.0008485156923566 97 rna-XM_041010917.1 15495782 5 45234682 45234778 Glycine max 3847 AAA|GTAAGCTCCA...TGGTTTTTGATG/CTCAATTTAATT...TGTAG|ATT 2 1 12.285
83762524 GT-AG 0 1.000000099473604e-05 88 rna-XM_041010917.1 15495782 6 45230387 45230474 Glycine max 3847 AAG|GTGAGGCAGT...TGCCTTTTAACC/TGCCTTTTAACC...TGCAG|CTT 0 1 93.674
83762525 GT-AG 0 1.556731517339744e-05 117 rna-XM_041010917.1 15495782 7 45229994 45230110 Glycine max 3847 CAG|GTCTGTCTCA...AATATGTTAATT/AATATGTTAATT...AATAG|GCT 0 1 99.013

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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]);