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 = 623779

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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
3437264 GT-AG 0 1.5328817788921677e-05 78 rna-EDS130_LOCUS388 623779 1 1114759 1114836 Adineta ricciae 249248 TTC|GTAAGTAGAT...TCTTCCCTATTA/TAAAAATTGATA...ATTAG|ATT 1 1 1.072
3437265 GT-AG 0 1.000000099473604e-05 60 rna-EDS130_LOCUS388 623779 2 1115140 1115199 Adineta ricciae 249248 TGA|GTGAGTGTAT...GAAAGTTTAATT/GAAAGTTTAATT...TGTAG|AAC 1 1 9.847
3437266 GT-AG 0 1.000000099473604e-05 51 rna-EDS130_LOCUS388 623779 3 1116203 1116253 Adineta ricciae 249248 AAA|GTAAGGAAAG...TCAACCTTCATA/TTCATAGTCACT...TTTAG|AAA 2 1 38.894
3437267 GT-AG 0 1.000000099473604e-05 58 rna-EDS130_LOCUS388 623779 4 1117258 1117315 Adineta ricciae 249248 TGA|GTAAGAATCC...CAAATTTTCATT/CAAATTTTCATT...TAAAG|ATG 1 1 67.97
3437268 GT-AG 0 0.0033759918001321 63 rna-EDS130_LOCUS388 623779 5 1117819 1117881 Adineta ricciae 249248 TTT|GTACATACAT...ATTTCCGTGACT/ATCTTCATGATT...TCTAG|TCA 0 1 82.537
3437269 GT-AG 0 0.0008509799105179 52 rna-EDS130_LOCUS388 623779 6 1118214 1118265 Adineta ricciae 249248 GAT|GTAAGTTATC...TTTGTCTTATCT/ATTTGTCTTATC...TCAAG|AAT 2 1 92.152
3437270 GT-AG 0 1.000000099473604e-05 56 rna-EDS130_LOCUS388 623779 7 1118316 1118371 Adineta ricciae 249248 AAG|GTTCGTATCA...GTATTTTTATCT/TGTATTTTTATC...AATAG|AAA 1 1 93.6

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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]);