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 = 20048056

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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
107425362 GT-AG 0 1.000000099473604e-05 66422 rna-XM_003404363.3 20048056 1 78506944 78573365 Loxodonta africana 9785 CAG|GTGAGGGCGC...TTTTTTTTTTCT/TATATTTTCATT...AACAG|ACA 0 1 2.052
107425363 GT-AG 0 1.000000099473604e-05 198 rna-XM_003404363.3 20048056 2 78506591 78506788 Loxodonta africana 9785 ATT|GTGAGTAGAC...GTATCCTTACCA/TGTATCCTTACC...TTTAG|AAG 2 1 3.945
107425364 GT-AG 0 1.000000099473604e-05 2302 rna-XM_003404363.3 20048056 3 78504210 78506511 Loxodonta africana 9785 CAG|GTGAGACTAT...TGCTTTTTGAAA/GTTTATTTAATA...TATAG|GTA 0 1 4.91
107425365 GT-AG 0 6.195993913362247e-05 15150 rna-XM_003404363.3 20048056 4 78488924 78504073 Loxodonta africana 9785 AAG|GTAAATTTTC...TATGTCTTGTTT/ATGTTAATAATC...TAAAG|TGA 1 1 6.571
107425366 GT-AG 0 1.000000099473604e-05 13082 rna-XM_003404363.3 20048056 5 78475639 78488720 Loxodonta africana 9785 GAG|GTGAGTATGT...ACATCCTTATGT/CACATCCTTATG...TTTAG|ATT 0 1 9.051
107425367 GT-AG 0 1.000000099473604e-05 1910 rna-XM_003404363.3 20048056 6 78473592 78475501 Loxodonta africana 9785 TTG|GTAAGTTAAT...CTATGCTTATTA/TCTATGCTTATT...CCTAG|GGA 2 1 10.724
107425368 GT-AG 0 1.000000099473604e-05 2206 rna-XM_003404363.3 20048056 7 78471244 78473449 Loxodonta africana 9785 GAG|GTAAGAATAA...CATCTTTTCATA/CATCTTTTCATA...CACAG|ACT 0 1 12.459

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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]);