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)

5 rows where transcript_id = 6846830

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Suggested facets: phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
35659718 GT-AG 0 1.000000099473604e-05 867 rna-XM_022038858.1 6846830 1 2691 3557 Carica papaya 3649 AAG|GTTCTACTCT...TGATCCTTAATG/GTCTTCCTGATC...TACAG|GCA 2 1 4.686
35659719 GT-AG 0 0.0023431154871304 74 rna-XM_022038858.1 6846830 2 2465 2538 Carica papaya 3649 GCG|GTACATTATA...GATTCCTTTTCT/GCGTATTTTACT...TCCAG|GCT 1 1 22.057
35659720 GT-AG 0 3.293824442323387e-05 142 rna-XM_022038858.1 6846830 3 2189 2330 Carica papaya 3649 CTT|GTAAGTTGAG...TGTTGCTTATCA/GTGTTGCTTATC...TGTAG|GAA 0 1 37.371
35659721 GT-AG 0 2.6082487256166376e-05 106 rna-XM_022038858.1 6846830 4 1865 1970 Carica papaya 3649 TAG|GTACTTCGAA...CTTACATTGATC/CTTACATTGATC...ATCAG|GTA 2 1 62.286
35659722 GT-AG 0 0.0004322988477438 1209 rna-XM_022038858.1 6846830 5 449 1657 Carica papaya 3649 GAG|GTATAATAGA...TCTATCTTATTT/CTCTATCTTATT...TGCAG|GGA 2 1 85.943

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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]);