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 = 34283708

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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
192053347 GT-AG 0 1.000000099473604e-05 2199 rna-XM_014876553.1 34283708 1 7069284 7071482 Sturnus vulgaris 9172 CCG|GTAGGTGTAG...GCTTTCTTTTTT/GTGCCACTGATA...TCTAG|GCA 2 1 6.921
192053348 GT-AG 0 1.000000099473604e-05 6612 rna-XM_014876553.1 34283708 2 7071684 7078295 Sturnus vulgaris 9172 GAG|GTAATAGAAA...TTCTTTTTATTC/TTTTTATTCACC...AATAG|GCA 2 1 10.194
192053349 GT-AG 0 0.0001138913032812 7057 rna-XM_014876553.1 34283708 3 7079726 7086782 Sturnus vulgaris 9172 CTG|GTAAGCTGAC...TCTCTTTTAATC/TCTCTTTTAATC...ACAAG|GAA 1 1 33.48
192053350 GT-AG 0 1.000000099473604e-05 5434 rna-XM_014876553.1 34283708 4 7086860 7092293 Sturnus vulgaris 9172 CAG|GTAAATTATT...TGTTCATTTGTT/TTTGTGTTCATT...TTTAG|CTT 0 1 34.734
192053351 GT-AG 0 2.193541584363304e-05 11624 rna-XM_014876553.1 34283708 5 7092384 7104007 Sturnus vulgaris 9172 TCG|GTATGTGACA...TAGGTCTAATAC/TTAGGTCTAATA...TTCAG|GGA 0 1 36.199
192053352 GT-AG 0 1.000000099473604e-05 6365 rna-XM_014876553.1 34283708 6 7104124 7110488 Sturnus vulgaris 9172 CAG|GTAATTACCT...GTTTTTTTAGTA/TGTTTTTTTAGT...TTAAG|GTC 2 1 38.088
192053353 GT-AG 0 0.0001806824513752 2193 rna-XM_014876553.1 34283708 7 7110677 7112869 Sturnus vulgaris 9172 ATG|GTAAGCATTT...TCTGTTTTAATA/TCTGTTTTAATA...TGCAG|ATG 1 1 41.15

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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]);