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 = 6787095

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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
35252897 GT-AG 0 1.000000099473604e-05 6438 rna-XM_041213969.1 6787095 1 12066654 12073091 Carcharodon carcharias 13397 AAA|GTAAGTGTGA...AGTTCCTGAGCC/TCACAATTCAAT...CAAAG|GAA 2 1 11.592
35252898 GT-AG 0 0.0002026695435649 17846 rna-XM_041213969.1 6787095 2 12048688 12066533 Carcharodon carcharias 13397 TAG|GTATGTCTCA...TAAGCCTTCAGA/GTTTTCCACACT...TATAG|ATA 2 1 14.984
35252899 GT-AG 0 1.000000099473604e-05 6708 rna-XM_041213969.1 6787095 3 12041873 12048580 Carcharodon carcharias 13397 AAG|GTCAGTATAG...ATTGTTATGATG/ATTGTTATGATG...CATAG|ACC 1 1 18.01
35252900 GT-AG 0 1.000000099473604e-05 2935 rna-XM_041213969.1 6787095 4 12038842 12041776 Carcharodon carcharias 13397 CAG|GTCTGGAAAA...GTAGTCTTAGCC/TAATAGCTCATT...TAAAG|CAT 1 1 20.724
35252901 GT-AG 0 3.278465412617323e-05 3588 rna-XM_041213969.1 6787095 5 12035080 12038667 Carcharodon carcharias 13397 AAG|GTATGACACA...ACTCCTTTAAAT/ACTCCTTTAAAT...TTCAG|CAA 1 1 25.643
35252902 GT-AG 0 0.0004530798443088 12725 rna-XM_041213969.1 6787095 6 12020294 12033018 Carcharodon carcharias 13397 CAG|GTAACTACTC...AAATTCTAAACT/ATTATAATGACT...TTCAG|CGG 1 1 83.913
35252903 GT-AG 0 1.000000099473604e-05 7280 rna-XM_041213969.1 6787095 7 12012867 12020146 Carcharodon carcharias 13397 CAG|GTGAGGTTCT...TTTCCTTTGAAT/TTTGTTGTTATC...GTTAG|ATT 1 1 88.069

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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]);