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 = 17265341

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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
92255740 GT-AG 0 1.000000099473604e-05 90 rna-XM_021445467.1 17265341 1 6943941 6944030 Herrania umbratica 108875 CAG|GTACGAATCA...GCCATCTTGGTT/TAAGATCTCACC...TTCAG|GTG 0 1 2.172
92255741 GT-AG 0 0.0056727536636933 87 rna-XM_021445467.1 17265341 2 6943653 6943739 Herrania umbratica 108875 ACT|GTATGTATAG...TCCTTCTGAGTT/TGTTGGCTAATT...TGCAG|GGG 0 1 8.235
92255742 GT-AG 0 1.000000099473604e-05 140 rna-XM_021445467.1 17265341 3 6943390 6943529 Herrania umbratica 108875 CAC|GTTAGTTCTC...TTGGTTGTGAAA/TGAAAATTCATG...CACAG|GTG 0 1 11.946
92255743 GT-AG 0 1.000000099473604e-05 119 rna-XM_021445467.1 17265341 4 6943233 6943351 Herrania umbratica 108875 GAG|GTGATACAAA...TTTTTCTTGTTC/GTTCTATTTACA...ATCAG|ATA 2 1 13.092
92255744 GT-AG 0 8.038664783200843e-05 133 rna-XM_021445467.1 17265341 5 6942997 6943129 Herrania umbratica 108875 GAA|GTAAGTCCCC...TTGTCCTTGATT/TTGTCCTTGATT...CACAG|GAT 0 1 16.199
92255745 GT-AG 0 1.000000099473604e-05 254 rna-XM_021445467.1 17265341 6 6940523 6940776 Herrania umbratica 108875 AAG|GTAGTTGTTC...TAATATTTAACA/CTTGTTCTCATT...TGCAG|GAT 0 1 83.167
92255746 GT-AG 0 1.000000099473604e-05 418 rna-XM_021445467.1 17265341 7 6939952 6940369 Herrania umbratica 108875 GAG|GTTTGTGAAT...AGACTGTTACTT/GGATTACTGATG...TACAG|GAA 0 1 87.783
92255747 GT-AG 0 1.000000099473604e-05 117 rna-XM_021445467.1 17265341 8 6939677 6939793 Herrania umbratica 108875 AAG|GTGAACATTG...ATCGACTTATCA/ATGGAGCTCATC...AACAG|AAG 2 1 92.549

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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]);