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 = 11997986

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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
65073932 GT-AG 0 1.000000099473604e-05 5231 rna-XM_026110537.1 11997986 2 6145480 6150710 Dromaius novaehollandiae 8790 CAG|GTAGGACAGA...TTTTTTGTAATT/TTTTTTGTAATT...TGTAG|ACA 0 1 12.704
65073933 GT-AG 0 1.000000099473604e-05 525 rna-XM_026110537.1 11997986 3 6150804 6151328 Dromaius novaehollandiae 8790 GAG|GTCAGGAATG...TGTACCTGAACT/CCTGAACTTATC...ATTAG|ATC 0 1 20.687
65073934 GT-AG 0 1.000000099473604e-05 7291 rna-XM_026110537.1 11997986 4 6151443 6158733 Dromaius novaehollandiae 8790 CAG|GTAAGGCTGT...TATTTTGTAAAT/TGCTTTCTCACT...TTCAG|GCT 0 1 30.472
65073935 GT-AG 0 0.067016369817101 691 rna-XM_026110537.1 11997986 5 6158878 6159568 Dromaius novaehollandiae 8790 GTT|GTATGTATCT...TGCCTTTTATTT/ATGCCTTTTATT...AACAG|CCC 0 1 42.833
65073936 GT-AG 0 1.7764021389768816e-05 903 rna-XM_026110537.1 11997986 6 6159795 6160697 Dromaius novaehollandiae 8790 AAG|GTACTGTGTA...GGGTTTTTATAG/TGGGTTTTTATA...TGCAG|AAA 1 1 62.232
65073937 GT-AG 0 1.000000099473604e-05 3982 rna-XM_026110537.1 11997986 7 6160819 6164800 Dromaius novaehollandiae 8790 CTT|GTAAGTTGAT...GTTGGTTTAAAA/CAGAATTTGATT...TCTAG|GCC 2 1 72.618
65074179 GT-AG 0 1.000000099473604e-05 8878 rna-XM_026110537.1 11997986 1 6136450 6145327 Dromaius novaehollandiae 8790 AAG|GTGAGCGCTG...TCTTTCTAATCA/TTCTTTCTAATC...TCCAG|CTG   0 10.901

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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]);