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)

8 rows where transcript_id = 38062824

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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
210096523 GT-AG 0 0.0007103620103885 332 rna-XM_034834251.1 38062824 1 21441523 21441854 Vitis riparia 96939 CTG|GTTTGTTTCA...ATTCTTTTGAAA/GATTGGTTGATT...TTTAG|TTA 1 1 14.151
210096524 GT-AG 0 1.000000099473604e-05 91 rna-XM_034834251.1 38062824 2 21441154 21441244 Vitis riparia 96939 CAG|GTAAAAACAT...GTTTGCTTAGGC/AATGCACTCACT...TGCAG|GCT 0 1 24.213
210096525 GT-AG 0 0.099698177395125 265 rna-XM_034834251.1 38062824 3 21440651 21440915 Vitis riparia 96939 CAG|GTATATTGCA...TAATCCTTAATC/ACGTTTTTAATC...AACAG|ATC 1 1 32.827
210096526 GT-AG 0 0.0003966108686918 157 rna-XM_034834251.1 38062824 4 21440161 21440317 Vitis riparia 96939 CAA|GTATGCGCCC...TTTTTCTGCATC/TGAGTATTCACC...TTCAG|GGG 1 1 44.879
210096527 GT-AG 0 0.3073884051546143 94 rna-XM_034834251.1 38062824 5 21439981 21440074 Vitis riparia 96939 AAG|GTATCATCTA...GAATTCTTAAAT/CAAGTATTCATT...TACAG|GGA 0 1 47.991
210096528 GT-AG 0 0.1060007025506868 481 rna-XM_034834251.1 38062824 6 21439392 21439872 Vitis riparia 96939 GAG|GTATCAATAT...TATTTTTTAACT/TATTTTTTAACT...TACAG|GCT 0 1 51.9
210096529 GT-AG 0 1.000000099473604e-05 308 rna-XM_034834251.1 38062824 7 21438782 21439089 Vitis riparia 96939 CTG|GTAAGACAGA...AATGTGTTGATG/TTTGTACTCATC...TTCAG|GTT 2 1 62.83
210096530 GT-AG 0 1.000000099473604e-05 182 rna-XM_034834251.1 38062824 8 21438333 21438514 Vitis riparia 96939 GAG|GTAAGGATTC...CAGGTTTTGATT/ATTGTACTCATG...TTCAG|GGG 2 1 72.494

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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]);