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 = 19533939

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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
104745187 GT-AG 0 1.000000099473604e-05 899 rna-XM_009955483.1 19533939 1 997 1895 Leptosomus discolor 188344 GAG|GTGCGAATAT...TCTTTCTTACTC/CGGTTTCTCATT...TGCAG|ACG 2 1 16.049
104745188 GT-AG 0 1.000000099473604e-05 1567 rna-XM_009955483.1 19533939 2 2103 3669 Leptosomus discolor 188344 CAA|GTAAGTAAAT...TTTGCTGTAATC/TTTGCTGTAATC...TGTAG|GTG 2 1 31.082
104745189 GT-AG 0 0.0002430884732126 949 rna-XM_009955483.1 19533939 3 3737 4685 Leptosomus discolor 188344 GAG|GTATGTGTTC...GTAACTTTACAT/TTTATAGTAACT...TTCAG|GGT 0 1 35.948
104745190 GT-AG 0 1.000000099473604e-05 504 rna-XM_009955483.1 19533939 4 4887 5390 Leptosomus discolor 188344 CAG|GTCAGGAGGG...GTTTTCTTGACT/GTTTTCTTGACT...CCTAG|GGA 0 1 50.545
104745191 GT-AG 0 1.000000099473604e-05 2011 rna-XM_009955483.1 19533939 5 5553 7563 Leptosomus discolor 188344 CAG|GTTGGAGTTT...TTTTTCTTGCTT/CTTCTGCCCATG...CTTAG|CAG 0 1 62.309
104745192 GT-AG 0 1.000000099473604e-05 2454 rna-XM_009955483.1 19533939 6 7714 10167 Leptosomus discolor 188344 AAG|GTAAGGGCAT...GAGTCCTCAGTG/AGACACCTCATT...TCAAG|TCA 0 1 73.203
104745193 GT-AG 0 9.027694334042188e-05 830 rna-XM_009955483.1 19533939 7 10337 11166 Leptosomus discolor 188344 ACA|GTACGAATAG...ACTTTCTTTTCT/ACATAGATAACA...AGCAG|ATG 1 1 85.476

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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]);