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)

8 rows where transcript_id = 8115955

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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
43325562 GT-AG 0 1.000000099473604e-05 288 rna-XM_010129139.1 8115955 1 10270 10557 Chlamydotis macqueenii 187382 CAG|GTAAAGCTTC...CCCATCTTGTCT/GAGACCCCCATC...GGCAG|GGG 2 1 7.112
43325563 GT-AG 0 1.000000099473604e-05 278 rna-XM_010129139.1 8115955 2 9816 10093 Chlamydotis macqueenii 187382 TCA|GTAAGTCAGG...GCCCCCGTGTTC/ACTGTGCTCACA...TGCAG|TCC 1 1 22.194
43325564 GT-AG 0 1.000000099473604e-05 587 rna-XM_010129139.1 8115955 3 9174 9760 Chlamydotis macqueenii 187382 CCT|GTAAGTACCA...TTTCCCTTCTGT/GTGCAGCTCAGC...CGCAG|GAT 2 1 26.907
43325565 GT-AG 0 1.000000099473604e-05 157 rna-XM_010129139.1 8115955 4 8951 9107 Chlamydotis macqueenii 187382 CAG|GTAAGGCCAG...GCGTCCCTACAC/CCTACACTCAGA...CCCAG|AAA 2 1 32.562
43325566 GT-AG 0 1.000000099473604e-05 682 rna-XM_010129139.1 8115955 5 8105 8786 Chlamydotis macqueenii 187382 AAG|GTAGGAGGGA...GATGCTCTACCC/AGGTCGCTCAGG...TGCAG|AGA 1 1 46.615
43325567 GT-AG 0 1.000000099473604e-05 853 rna-XM_010129139.1 8115955 6 7161 8013 Chlamydotis macqueenii 187382 TAT|GTGAGTGAGA...TGGGGCTGGAGG/GGTGCCCCCAGG...CGCAG|GTG 2 1 54.413
43325568 GT-AG 0 1.000000099473604e-05 89 rna-XM_010129139.1 8115955 7 6918 7006 Chlamydotis macqueenii 187382 CTG|GTAGGTGCTT...TGGATCTGATTC/GTGGATCTGATT...TGCAG|ATC 0 1 67.609
43325569 GT-AG 0 1.000000099473604e-05 608 rna-XM_010129139.1 8115955 8 6184 6791 Chlamydotis macqueenii 187382 AAG|GTGAGGTTGG...TTCCCCGTTGTG/CGGCCACAAATT...TGCAG|GTG 0 1 78.406

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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]);