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 = 5774001

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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
29499261 GT-AG 0 0.001940765149489 1267 rna-XM_020361458.2 5774001 1 16331135 16332401 Cajanus cajan 3821 TGA|GTAAGTTTGC...CGGTCTTTAACT/CGGTCTTTAACT...TATAG|TGG 1 1 10.594
29499262 GT-AG 0 5.560047121030927e-05 86 rna-XM_020361458.2 5774001 2 16332524 16332609 Cajanus cajan 3821 GGG|GTAATTTATC...CTTGTTTTAAAT/ATTTTACTAATA...TGTAG|GTG 0 1 15.21
29499263 GT-AG 0 1.000000099473604e-05 698 rna-XM_020361458.2 5774001 3 16332732 16333429 Cajanus cajan 3821 TAG|GTAAGAAGCC...ATGTTTTTGATG/ATGTTTTTGATG...TGCAG|GAG 2 1 19.826
29499264 GT-AG 0 0.0011375525167523 231 rna-XM_020361458.2 5774001 4 16333535 16333765 Cajanus cajan 3821 AAG|GTATGTTGCC...TTATCTTTGGTA/TTGGTACTGATA...CTCAG|GGA 2 1 23.799
29499265 GT-AG 0 0.0008717654028627 168 rna-XM_020361458.2 5774001 5 16334157 16334324 Cajanus cajan 3821 CTG|GTATGTATAC...AGTGTCTGAACT/AATATTCTAAAA...ACTAG|CAG 0 1 38.593
29499266 GT-AG 0 0.0001996980661019 412 rna-XM_020361458.2 5774001 6 16334466 16334877 Cajanus cajan 3821 AGG|GTAAATTTTC...ATCTTTTTGAAC/ATCTTTTTGAAC...GACAG|GCT 0 1 43.927
29499267 GT-AG 0 1.000000099473604e-05 472 rna-XM_020361458.2 5774001 8 16336692 16337163 Cajanus cajan 3821 CTG|GTAATTCAAT...ATTATGTTAGTT/GTTCCACTCACT...TGCAG|GAA 0 1 92.849

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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]);