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 = 10007577

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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
55033604 GT-AG 0 1.000000099473604e-05 90 rna-XM_008442193.2 10007577 2 3307218 3307307 Cucumis melo 3656 CAG|GTAATTCAGT...ATGGCCTTATTT/TATTTTCTAATA...TTTAG|GAT 0 1 85.794
55033605 GT-AG 0 1.000000099473604e-05 90 rna-XM_008442193.2 10007577 3 3307071 3307160 Cucumis melo 3656 TTG|GTCAGTTTTT...TAGTTCTGAATT/ATTGGACTAATC...TGCAG|GGA 0 1 87.902
55033606 GT-AG 0 0.0009869384123614 76 rna-XM_008442193.2 10007577 4 3306929 3307004 Cucumis melo 3656 GCA|GTATGGCTCA...TTGTTTATAATT/TTGTTTATAATT...CCTAG|GAA 0 1 90.344
55033607 GT-AG 0 3.358167703655339e-05 345 rna-XM_008442193.2 10007577 5 3306512 3306856 Cucumis melo 3656 ATG|GTATGAGTAA...TTTCTTTTATTT/CTTTCTTTTATT...TGAAG|GAA 0 1 93.008
55033608 GT-AG 0 1.000000099473604e-05 113 rna-XM_008442193.2 10007577 6 3306339 3306451 Cucumis melo 3656 GAG|GTAGTTGTAA...ATGACATTAATA/AACATTTTCAAT...TGTAG|GGG 0 1 95.228
55033609 GT-AG 0 4.166431732477021e-05 121 rna-XM_008442193.2 10007577 7 3306149 3306269 Cucumis melo 3656 ATG|GTACAAACCT...TTGTTCTTGATT/TTGTTCTTGATT...TGCAG|AAC 0 1 97.78
55036615 GT-AG 0 5.007280219743439e-05 627 rna-XM_008442193.2 10007577 1 3309592 3310218 Cucumis melo 3656 GTT|GTGAGTTTCT...TTTCTTTTAACA/TTCATTTTCATT...ATTAG|TTC   0 5.327

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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]);