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 = 24347371

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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
132841347 GT-AG 0 1.000000099473604e-05 34568 rna-XM_040968998.1 24347371 1 30712570 30747137 Ochotona curzoniae 130825 AAG|GTAGGACCCA...GCAGCTCTACTG/ACTGCAGTAAGC...TTCAG|GTT 0 1 21.012
132841348 GT-AG 0 1.000000099473604e-05 33182 rna-XM_040968998.1 24347371 2 30679132 30712313 Ochotona curzoniae 130825 AAG|GTAAATACCA...TTTCTTTTGTCT/GCACTCAGCACG...TACAG|GTG 1 1 26.546
132841349 GT-AG 0 0.0007552961182312 381 rna-XM_040968998.1 24347371 3 30678663 30679043 Ochotona curzoniae 130825 CAG|GTATGCGCTA...CTGTTGTTAACA/CTGTTGTTAACA...CCTAG|GTT 2 1 28.448
132841350 GT-AG 0 1.000000099473604e-05 1605 rna-XM_040968998.1 24347371 4 30674579 30676183 Ochotona curzoniae 130825 CAA|GTAAGAGTGT...GAAATTTTAACA/GAAATTTTAACA...AACAG|GAC 0 1 82.036
132841351 GT-AG 0 1.000000099473604e-05 539 rna-XM_040968998.1 24347371 5 30673622 30674160 Ochotona curzoniae 130825 CCG|GTACGTGCCA...TAGCCCCTGACA/TTGTTGTTTATC...TTCAG|GAG 1 1 91.072
132841352 GT-AG 0 1.3935493025283642e-05 1443 rna-XM_040968998.1 24347371 6 30672006 30673448 Ochotona curzoniae 130825 GCG|GTAAGCCTCC...GCGGCACTAACT/GCGGCACTAACT...TGCAG|CCA 0 1 94.812
132841353 GT-AG 0 1.000000099473604e-05 2199 rna-XM_040968998.1 24347371 7 30669653 30671851 Ochotona curzoniae 130825 AAG|GTCAGCCACG...CCCTTATTATCG/ACCCTTATTATC...AATAG|GCT 1 1 98.141

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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]);