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 = 6846825

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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
35659704 GT-AG 0 1.000000099473604e-05 82 rna-XM_022038039.1 6846825 1 6406 6487 Carica papaya 3649 CTG|GTGGGTTTTC...CTCTCCTGAATT/TGGCTTCTCATT...TGTAG|GAT 1 1 32.492
35659705 GT-AG 0 1.000000099473604e-05 171 rna-XM_022038039.1 6846825 2 6534 6704 Carica papaya 3649 CAG|GTGCTGAAAA...CACTGCTTAATT/TCTATTATCATA...AATAG|ACC 2 1 40.236
35659706 GT-AG 0 1.000000099473604e-05 638 rna-XM_022038039.1 6846825 3 6733 7370 Carica papaya 3649 TCG|GTAAGAACTG...TTTGCTCTAATT/TTTGCTCTAATT...TAAAG|GCT 0 1 44.949
35659707 GT-AG 0 9.815351806426494e-05 332 rna-XM_022038039.1 6846825 4 7459 7790 Carica papaya 3649 GTG|GTAAGCTCTT...TTTTCTCTAATA/TTATTTCTCATT...TCTAG|GCT 1 1 59.764
35659708 GT-AG 0 0.000714943195175 104 rna-XM_022038039.1 6846825 5 7859 7962 Carica papaya 3649 CAG|GTATATATGA...GTTTCCTTTTTG/ATCGTATTCATT...CTTAG|GTT 0 1 71.212
35659709 GT-AG 0 0.0004839066798885 1131 rna-XM_022038039.1 6846825 6 8033 9163 Carica papaya 3649 TTG|GTAAACATGA...TTTTCATTAATG/TGGAATTTCATT...TGCAG|TTG 1 1 82.997
35659710 GT-AG 0 2.2884618508096305e-05 112 rna-XM_022038039.1 6846825 7 9200 9311 Carica papaya 3649 CAG|GTAACTACAG...CAACTTTTCACT/CAACTTTTCACT...TTCAG|GAG 1 1 89.057

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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]);