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 = 670669

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
3636518 GT-AG 0 0.0014624325517327 60 rna-BJG266_LOCUS580 670669 1 1924945 1925004 Adineta steineri 433720 CAC|GTAAATTTTT...ATTTTCTTCTCT/AATTTATTAAAT...TCTAG|ATT 1 1 2.552
3636519 GT-AG 0 0.0173581872198063 58 rna-BJG266_LOCUS580 670669 2 1924834 1924891 Adineta steineri 433720 TCT|GTATGAATTA...TTATTTTTATTT/TTTATTTTTATT...TTTAG|TAT 0 1 3.905
3636520 GT-AG 0 6.85374913712935e-05 55 rna-BJG266_LOCUS580 670669 3 1924677 1924731 Adineta steineri 433720 ATG|GTAATATTTT...ATATTTTTAATT/ATATTTTTAATT...AATAG|ACC 0 1 6.508
3636521 GT-AG 0 1.000000099473604e-05 53 rna-BJG266_LOCUS580 670669 4 1924479 1924531 Adineta steineri 433720 CAC|GTAATGCTTT...ATATATTTATAT/AATATATTTATA...TATAG|CTT 1 1 10.209
3636522 GT-AG 0 7.020527464298913e-05 48 rna-BJG266_LOCUS580 670669 5 1924021 1924068 Adineta steineri 433720 AAG|GTATGTGAAA...ATATTTTTACTT/GATATTTTTACT...ATTAG|ACT 0 1 20.674
3636523 GT-AG 0 1.000000099473604e-05 489 rna-BJG266_LOCUS580 670669 6 1923310 1923798 Adineta steineri 433720 ACG|GTAAATCATT...AATTATTTAATT/AATTATTTAATT...TTTAG|TCT 0 1 26.34
3636524 GT-AG 0 0.0064023117564434 219 rna-BJG266_LOCUS580 670669 7 1922182 1922400 Adineta steineri 433720 AAG|GTATGTTTGA...TTATCGTTATTT/TGATTTCTAAAT...CTTAG|TCA 0 1 49.541
3636525 GT-AG 0 1.678699283830728e-05 53 rna-BJG266_LOCUS580 670669 8 1920238 1920290 Adineta steineri 433720 AAG|GTAATTTTAA...TTTCTATTAATA/TTTCTATTAATA...CAAAG|GAC 1 1 97.805

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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]);