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 = 19749061

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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
105762644 GT-AG 0 1.000000099473604e-05 6387 rna-XM_007445676.1 19749061 1 3379965 3386351 Lipotes vexillifer 118797 CAG|GTGAGATCGG...GTCATTTTAATT/TTTTAATTCACA...TCCAG|ACG 1 1 7.597
105762645 GT-AG 0 0.006705771129464 965 rna-XM_007445676.1 19749061 2 3386470 3387434 Lipotes vexillifer 118797 GGG|GTATTTCATT...TTTTCTTTTTCT/TGGAAATCCACA...GTTAG|ATA 2 1 25.891
105762646 GT-AG 0 1.000000099473604e-05 293 rna-XM_007445676.1 19749061 3 3387563 3387855 Lipotes vexillifer 118797 TAG|GTAAGGAAAC...CTACCTTTAAAA/GTTGTTATAACT...TATAG|AAT 1 1 45.736
105762647 GT-AG 0 1.000000099473604e-05 3234 rna-XM_007445676.1 19749061 4 3387943 3391176 Lipotes vexillifer 118797 AAG|GTAAGGGTTT...AAAACCTTATTT/AACATTTTTATA...TTCAG|AAT 1 1 59.225
105762648 GT-AG 0 1.388903825009866e-05 758 rna-XM_007445676.1 19749061 5 3391235 3391992 Lipotes vexillifer 118797 AAA|GTAAGTTCAG...ACTATTTTATTT/CACTATTTTATT...TTCAG|GGA 2 1 68.217
105762649 GT-AG 0 0.0013938984558596 86 rna-XM_007445676.1 19749061 6 3392060 3392145 Lipotes vexillifer 118797 AAG|GTATTTGCAT...TTTTTCTTATTA/TTTTTTCTTATT...CACAG|CTA 0 1 78.605
105762650 GT-AG 0 1.000000099473604e-05 710 rna-XM_007445676.1 19749061 7 3392216 3392925 Lipotes vexillifer 118797 AAA|GTAAGTAACA...GTTTCTTTCTCT/CTTTCTCTCAAT...TGCAG|ATG 1 1 89.457

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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]);