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 = 13851142

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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
73763636 GT-AG 0 1.000000099473604e-05 2158 rna-XM_012974559.1 13851142 1 2314764 2316921 Erythranthe guttata 4155 CCG|GTGAGTATTT...TTTTTTTTAATC/TTTTTTTTAATC...TCTAG|AAA 1 1 7.533
73763637 GT-AG 0 1.000000099473604e-05 513 rna-XM_012974559.1 13851142 2 2317209 2317721 Erythranthe guttata 4155 AAG|GTTAGTATTA...TTATTTTCGAAA/AAAAAATTAATT...ATTAG|TCA 0 1 18.735
73763638 GT-AG 0 1.000000099473604e-05 136 rna-XM_012974559.1 13851142 3 2317960 2318095 Erythranthe guttata 4155 AAG|GTTAGAGATT...TTCATCTCAATT/TTTGGATTCATC...GGCAG|ATC 1 1 28.025
73763639 GT-AG 0 2.053278542456293e-05 108 rna-XM_012974559.1 13851142 4 2318414 2318521 Erythranthe guttata 4155 ACA|GTAATTCACA...TTCTTCTTGTTA/TTTGCGTTGAAC...TGCAG|GAG 1 1 40.437
73763640 GT-AG 0 0.0928864752241354 199 rna-XM_012974559.1 13851142 5 2318608 2318806 Erythranthe guttata 4155 ACG|GTATGCTCTC...TTCTTCTAAATA/ATTCTTCTAAAT...CACAG|GAA 0 1 43.794
73763641 GT-AG 0 1.6642084937481904e-05 342 rna-XM_012974559.1 13851142 6 2319220 2319561 Erythranthe guttata 4155 CTG|GTAAGTTTCT...TCACTCTTACAA/AATAAATTCACT...TGCAG|GTT 2 1 59.914
73763642 GT-AG 0 1.000000099473604e-05 128 rna-XM_012974559.1 13851142 7 2319829 2319956 Erythranthe guttata 4155 CAG|GTAAATCAAT...ATAATAATAATA/ATAATAATAATA...TGCAG|GGG 2 1 70.336

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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]);