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 = 9887145

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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
54167429 GT-AG 0 1.000000099473604e-05 916 rna-XM_039352086.1 9887145 1 148205 149120 Crotalus tigris 88082 AAG|GTCAGGGTCT...TTAATTTTATAT/TAAATGTTAATT...TGCAG|TAA 1 1 10.207
54167430 GT-AG 0 1.000000099473604e-05 4095 rna-XM_039352086.1 9887145 2 149207 153301 Crotalus tigris 88082 GAA|GTAAGAGTAA...TTGTTTTTAATT/TTGTTTTTAATT...TATAG|GCT 0 1 21.318
54167431 GT-AG 0 1.646491408482151 820 rna-XM_039352086.1 9887145 3 153419 154238 Crotalus tigris 88082 TAT|GTATGTTTCC...CTTTTTTTAATT/AATTTTTTCATT...ATAAG|AAA 0 1 36.434
54167432 GT-AG 0 6.369671575136467e-05 2167 rna-XM_039352086.1 9887145 4 154405 156571 Crotalus tigris 88082 AAG|GTAGGCCTTC...ACATTGTTAATA/AGATTTCTAACT...CTTAG|AAA 1 1 57.881
54167433 GT-AG 0 0.0004938979890712 2025 rna-XM_039352086.1 9887145 5 156674 158698 Crotalus tigris 88082 GAG|GTATGTTGCT...AGTTTATTATAA/TAATAGTTTATT...TCTAG|ATT 1 1 71.059
54167434 GT-AG 0 1.000000099473604e-05 11922 rna-XM_039352086.1 9887145 6 158802 170723 Crotalus tigris 88082 AAG|GTAAAGACAC...TCTTTCTTAATA/TTCTTTCTTAAT...CACAG|GCT 2 1 84.367
54167435 GT-AG 0 0.0116474373922551 1982 rna-XM_039352086.1 9887145 7 170812 172793 Crotalus tigris 88082 ATG|GTACACTCTT...GTTTTCTTTTCT/AGACAACTAATT...TGCAG|GAA 0 1 95.736

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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]);