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 = 10007546

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
55033263 GT-AG 0 1.000000099473604e-05 216 rna-XM_008440599.2 10007546 1 2498515 2498730 Cucumis melo 3656 CTG|GTTGGTTTTC...CTATCGTTATTT/GCTATCGTTATT...TGCAG|GGA 1 1 11.461
55033264 GT-AG 0 1.000000099473604e-05 132 rna-XM_008440599.2 10007546 2 2499919 2500050 Cucumis melo 3656 GAG|GTACATGAAA...ACCTAGTTGATC/ACCTAGTTGATC...TGTAG|GAG 1 1 50.476
55033265 GT-AG 0 1.000000099473604e-05 237 rna-XM_008440599.2 10007546 3 2500234 2500470 Cucumis melo 3656 ATG|GTAAGGCATT...TTAACCATAATT/CTTTATTTCAAT...TATAG|AGA 1 1 56.486
55033266 GT-AG 0 1.000000099473604e-05 222 rna-XM_008440599.2 10007546 4 2500755 2500976 Cucumis melo 3656 AAG|GTAAGCATAT...AACTTCTTCTCT/ATCTGGCTAACT...TACAG|CTG 0 1 65.813
55033267 GT-AG 0 1.399526262015338e-05 324 rna-XM_008440599.2 10007546 5 2501094 2501417 Cucumis melo 3656 CAG|GTAGATATTA...GTTGTCTTGTCT/TTGCTTGTGATT...TACAG|GGG 0 1 69.655
55033268 GT-AG 0 1.000000099473604e-05 97 rna-XM_008440599.2 10007546 6 2501681 2501777 Cucumis melo 3656 CAG|GTAACGCCAT...TAGATTTTAAAC/GTGGAACTAACT...GGCAG|GAC 2 1 78.292
55033269 GT-AG 0 1.000000099473604e-05 172 rna-XM_008440599.2 10007546 7 2501953 2502124 Cucumis melo 3656 AAT|GTGGGTGATT...TCTTTCTTGTCA/TTTCTTGTCACA...TGCAG|ATA 0 1 84.039
55033270 GT-AG 0 0.0002453785847526 99 rna-XM_008440599.2 10007546 8 2502416 2502514 Cucumis melo 3656 CGT|GTACGTAATG...ACTCTCCTGATA/ACTCTCCTGATA...TGCAG|ATA 0 1 93.596

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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]);