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 = 15088565

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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
81572927 GT-AG 0 1.000000099473604e-05 932 rna-XM_009822422.1 15088565 1 87701 88632 Gavia stellata 37040 AAG|GTAAAGTGAA...CAATCCTTTGTT/TCTACAGTTATA...TTTAG|ATG 1 1 18.283
81572928 GT-AG 0 1.267903459775954e-05 1015 rna-XM_009822422.1 15088565 2 86582 87596 Gavia stellata 37040 AAG|GTTTGTTAGC...TTCTCATTATTT/TATATTCTCATT...TGCAG|GAC 0 1 28.788
81572929 GT-AG 0 1.000000099473604e-05 325 rna-XM_009822422.1 15088565 3 86121 86445 Gavia stellata 37040 AAG|GTAAAAGTAT...CTTTTCTTAATG/TCTTTTCTTAAT...TACAG|CTT 1 1 42.525
81572930 GT-AG 0 1.000000099473604e-05 444 rna-XM_009822422.1 15088565 4 85576 86019 Gavia stellata 37040 GAG|GTAATGTTCA...AATCCCTTTTTT/AAGATATTCATG...TTTAG|TTG 0 1 52.727
81572931 GT-AG 0 0.0036131699020482 917 rna-XM_009822422.1 15088565 5 84510 85426 Gavia stellata 37040 ATT|GTAAGTTTCC...ATATCCTTACTT/CATATCCTTACT...TTTAG|ATT 2 1 67.778
81572932 GT-AG 0 1.000000099473604e-05 1054 rna-XM_009822422.1 15088565 6 83399 84452 Gavia stellata 37040 AAG|GTAAGGCTAC...TTTTTCTTTTAA/CTCAAATTAATT...ATTAG|TGG 2 1 73.535
81572933 GT-AG 0 0.0002545735491264 751 rna-XM_009822422.1 15088565 7 82562 83312 Gavia stellata 37040 TCA|GTAAGTATAA...TATCTTTTAACT/TATCTTTTAACT...TGCAG|AGG 1 1 82.222

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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]);