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 = 10007516

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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
55032898 GT-AG 0 0.016570031479991 1270 rna-XM_017043441.1 10007516 1 5185184 5186453 Cucumis melo 3656 TGA|GTATGTTTCT...AACATTTAAGCT/TTTAAGCTGACT...TGTAG|GTT 2 1 3.693
55032899 GT-AG 0 0.0001549330485895 864 rna-XM_017043441.1 10007516 2 5184156 5185019 Cucumis melo 3656 CTG|GTATGACTCA...AAAATTTTGACA/AAAATTTTGACA...TGCAG|GTT 1 1 7.601
55032900 GT-AG 0 0.0004768088076677 89 rna-XM_017043441.1 10007516 3 5183943 5184031 Cucumis melo 3656 TAA|GTATGACCTT...CTGTTCTTTTCT/TCCTTGCTGAAA...TCCAG|ATT 2 1 10.555
55032901 GT-AG 0 1.000000099473604e-05 256 rna-XM_017043441.1 10007516 4 5183557 5183812 Cucumis melo 3656 AAG|GTGCGCATTG...TTTTCTGTAGTC/GTCATTCTGACC...CACAG|AGA 0 1 13.653
55032902 GT-AG 0 0.0008363322057263 73 rna-XM_017043441.1 10007516 5 5183416 5183488 Cucumis melo 3656 CAG|GTATTACTGA...TCTTCTTTAGTT/CTTTAGTTGAAT...TGCAG|TTT 2 1 15.273
55032903 GT-AG 0 1.000000099473604e-05 114 rna-XM_017043441.1 10007516 7 5179787 5179900 Cucumis melo 3656 AAG|GTAAATAGTA...CATTTATTATTT/TATTATTTGAAT...GCCAG|AAC 1 1 93.877
55032904 GT-AG 0 0.0002345422024923 557 rna-XM_017043441.1 10007516 8 5179132 5179688 Cucumis melo 3656 AAA|GTAAGCTACC...TTGCTTCTAACT/TTGCTTCTAACT...TCCAG|TCC 0 1 96.212
55032905 GT-AG 0 4.794487893910149e-05 81 rna-XM_017043441.1 10007516 9 5178943 5179023 Cucumis melo 3656 CAG|GTTCTCATTT...CTCGTCGTAACT/CTCGTCGTAACT...CTCAG|GCT 0 1 98.785

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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]);