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 = 34828594

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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
196137558 GT-AG 0 1.000000099473604e-05 432 rna-XM_025015806.1 34828594 1 72133 72564 Temnothorax curvispinosus 300111 TCG|GTAAATAGAT...CAAATTTTGATA/CAAATTTTGATA...TGCAG|GAA 1 1 2.198
196137559 GT-AG 0 1.000000099473604e-05 85 rna-XM_025015806.1 34828594 2 72810 72894 Temnothorax curvispinosus 300111 CAG|GTTGTCATTT...AAGGTATTAATG/AAAATATTTATA...TCAAG|GCA 0 1 14.724
196137560 GT-AG 0 0.0054125632184838 197 rna-XM_025015806.1 34828594 3 73076 73272 Temnothorax curvispinosus 300111 AAG|GTACCTAGAT...AATCTTTTAAAA/AATCTTTTAAAA...TTTAG|CTG 1 1 23.978
196137561 GT-AG 0 1.000000099473604e-05 64 rna-XM_025015806.1 34828594 4 73499 73562 Temnothorax curvispinosus 300111 TGG|GTAAGACTCG...GCATCCTCTGTG/AAGAGTGTAATG...TTCAG|TCT 2 1 35.532
196137562 GT-AG 0 1.000000099473604e-05 991 rna-XM_025015806.1 34828594 5 73769 74759 Temnothorax curvispinosus 300111 CGG|GTAAGTATCC...ATTCTTTTATAA/ATAATTCTAATG...GACAG|TGG 1 1 46.063
196137563 GT-AG 0 1.000000099473604e-05 318 rna-XM_025015806.1 34828594 6 74963 75280 Temnothorax curvispinosus 300111 AAG|GTTCTATTTT...CAATACTTATCT/ACTTATCTGATC...TTCAG|GTA 0 1 56.442
196137564 GT-AG 0 1.000000099473604e-05 713 rna-XM_025015806.1 34828594 7 75504 76216 Temnothorax curvispinosus 300111 CGG|GTAAGAATAT...TTCTTCTTAAGG/AATATTTTCATT...TACAG|TTA 1 1 67.843

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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]);