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)

6 rows where transcript_id = 29563908

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
164839896 GT-AG 0 1.000000099473604e-05 718 rna-XM_010084884.1 29563908 1 13155 13872 Pterocles gutturalis 240206 ACG|GTAAAGATTT...CATATATTAATT/CATATATTAATT...TTCAG|ACT 0 1 6.329
164839897 GT-AG 0 0.0110090935916925 6746 rna-XM_010084884.1 29563908 2 14024 20769 Pterocles gutturalis 240206 TAG|GTATGTTTTC...TTGTTTTTGGTT/ATTAGTTTGAAG...AACAG|TTG 1 1 16.948
164839898 GT-AG 0 2.4757281181465732e-05 22775 rna-XM_010084884.1 29563908 3 21354 44128 Pterocles gutturalis 240206 GAG|GTACAGTAGC...TTTACATTAATT/TTTACATTAATT...TATAG|TTA 0 1 58.017
164839899 GT-AG 0 1.000000099473604e-05 2738 rna-XM_010084884.1 29563908 4 44250 46987 Pterocles gutturalis 240206 AAG|GTAAGAGACC...TACCTGTTATCG/CCAGTACTTATG...TGCAG|AAC 1 1 66.526
164839900 GT-AG 0 1.000000099473604e-05 756 rna-XM_010084884.1 29563908 5 47196 47951 Pterocles gutturalis 240206 AAG|GTAATAAATG...GCTACCTAAAGT/ATTGCAGTTATT...CACAG|AGA 2 1 81.153
164839901 GT-AG 0 2.103687581481972e-05 561 rna-XM_010084884.1 29563908 6 48094 48654 Pterocles gutturalis 240206 AAG|GTACGTGTTT...CATACTTTGAAT/TTTGTTTTCATA...TTTAG|GTG 0 1 91.139

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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]);