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 = 20211435

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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
108234358 GT-AG 0 1.000000099473604e-05 2016 rna-XM_019585701.1 20211435 1 2151565 2153580 Lupinus angustifolius 3871 AAG|GTCAGTGTAA...TGTTTTTTCATT/TGTTTTTTCATT...TGTAG|TAT 0 1 16.056
108234359 GT-AG 0 0.0078925900336 698 rna-XM_019585701.1 20211435 2 2150649 2151346 Lupinus angustifolius 3871 CAA|GTAACTTTTA...CAAACCTGACAA/ATGTCACTCAGT...TTCAG|GAC 2 1 21.72
108234360 GT-AG 0 1.000000099473604e-05 77 rna-XM_019585701.1 20211435 3 2150445 2150521 Lupinus angustifolius 3871 CTG|GTAAAATAAT...TTGTATTTGACT/TTGTATTTGACT...TATAG|GAG 0 1 25.019
108234361 GT-AG 0 1.000000099473604e-05 108 rna-XM_019585701.1 20211435 4 2150268 2150375 Lupinus angustifolius 3871 CAG|GTAGAGGTGC...TCTTTTTTAGTG/ATTTTGTTAATT...TCCAG|GAC 0 1 26.812
108234362 GT-AG 0 0.050365692961641 197 rna-XM_019585701.1 20211435 5 2149927 2150123 Lupinus angustifolius 3871 TTT|GTATGTATTT...ATTAACTTATTT/TATTAACTTATT...ACCAG|CCA 0 1 30.553
108234363 GT-AG 0 0.0002700080266185 93 rna-XM_019585701.1 20211435 6 2149732 2149824 Lupinus angustifolius 3871 GAG|GTATTTGGTG...TGACTCTTTTCA/ACTCTTTTCATG...AACAG|ATT 0 1 33.203
108234364 GT-AG 0 6.71010067456264e-05 425 rna-XM_019585701.1 20211435 7 2148966 2149390 Lupinus angustifolius 3871 AGT|GTGTGTAATG...AATTCATTAATA/CTGCAATTCATT...TGTAG|GCA 2 1 42.063
108234365 GT-AG 0 0.0012508559882361 234 rna-XM_019585701.1 20211435 8 2147066 2147299 Lupinus angustifolius 3871 AAG|GTAAACTTTA...CCTTTTTTAAAC/CCTTTTTTAAAC...TGAAG|GGC 0 1 85.347

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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]);