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 = 4181803

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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
21587387 GT-AG 0 1.000000099473604e-05 4512 rna-XM_010689857.2 4181803 1 33692413 33696924 Beta vulgaris 161934 GAG|GTTTGTGTCT...ATTAGCTTGATC/AATGTACTCATT...TGCAG|GTT 1 1 8.757
21587388 GT-AG 0 1.000000099473604e-05 1644 rna-XM_010689857.2 4181803 2 33697644 33699287 Beta vulgaris 161934 CTG|GTAAGGTTTT...TATTCCTTTTCT/GTTTTACTTATT...TTCAG|GTG 0 1 29.068
21587389 GT-AG 0 1.000000099473604e-05 566 rna-XM_010689857.2 4181803 3 33700640 33701205 Beta vulgaris 161934 CAG|GTTTGACTCT...TATTTCTTGATG/GGTTTTCTCACA...TACAG|GAT 2 1 67.26
21587390 GT-AG 0 1.000000099473604e-05 445 rna-XM_010689857.2 4181803 4 33701382 33701826 Beta vulgaris 161934 AAG|GTTGGTGCTC...CAATCATTAATT/CAATCATTAATT...TTTAG|GTT 1 1 72.232
21587391 GT-AG 0 1.000000099473604e-05 86 rna-XM_010689857.2 4181803 5 33702476 33702561 Beta vulgaris 161934 TGG|GTAAGGACTT...ATCTTCTAGATG/ATGATGTTCACT...TGCAG|GTG 2 1 90.565
21587392 GT-AG 0 1.000000099473604e-05 794 rna-XM_010689857.2 4181803 6 33702644 33703437 Beta vulgaris 161934 AGA|GTGAGTCAAT...TGGTCTTTTGCT/GTAATTCTGACT...AGCAG|AGG 0 1 92.881
21587393 GT-AG 0 4.551142280425329e-05 1225 rna-XM_010689857.2 4181803 7 33703486 33704710 Beta vulgaris 161934 GGA|GTAAGTTACC...ATGGTTATAACT/ATGGTTATAACT...TGCAG|TTT 0 1 94.237

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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]);