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 = 11478723

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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
63113238 GT-AG 0 1.9408433907679075e-05 69 rna-DGYR_LOCUS676 11478723 1 2635747 2635815 Dimorphilus gyrociliatus 2664684 AAG|GTTTGTATAA...TATTTATTAATA/TTGATATTTATT...TTTAG|TTA 0 1 5.171
63113239 GT-AG 0 1.000000099473604e-05 66 rna-DGYR_LOCUS676 11478723 2 2635429 2635494 Dimorphilus gyrociliatus 2664684 CAA|GTAAGAAAAC...TTTTTTGTGATA/CTTTCATTTACT...TGAAG|GCT 0 1 13.366
63113240 GT-AG 0 1.000000099473604e-05 60 rna-DGYR_LOCUS676 11478723 3 2635061 2635120 Dimorphilus gyrociliatus 2664684 TAG|GTTAAATACT...AATCTCTTATCT/ATCTATCTAACT...AACAG|TAT 2 1 23.382
63113241 GT-AG 0 9.125106119649709e-05 62 rna-DGYR_LOCUS676 11478723 4 2634795 2634856 Dimorphilus gyrociliatus 2664684 AAA|GTAAATACGA...TTATTCTTATCT/CTTATTCTTATC...TATAG|AGA 2 1 30.016
63113242 GT-AG 0 1.000000099473604e-05 69 rna-DGYR_LOCUS676 11478723 5 2634589 2634657 Dimorphilus gyrociliatus 2664684 TAA|GTAAAACGTC...TTATTTTTGAAA/TTATTTTTGAAA...GACAG|GAA 1 1 34.472
63113243 GT-AG 0 1.000000099473604e-05 59 rna-DGYR_LOCUS676 11478723 6 2634407 2634465 Dimorphilus gyrociliatus 2664684 ACG|GTTGAAACTG...CTTTTTTTATAA/TCTTTTTTTATA...AATAG|ATC 1 1 38.472
63113244 GT-AG 0 1.2764760734667e-05 64 rna-DGYR_LOCUS676 11478723 7 2634240 2634303 Dimorphilus gyrociliatus 2664684 ACG|GTAAATATAC...ACTAACTTAATT/TAGTAATTCACT...ATTAG|ACT 2 1 41.821

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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]);