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 = 38062820

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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
210096491 GT-AG 0 2.276349228815072e-05 2610 rna-XM_034832200.1 38062820 1 2691611 2694220 Vitis riparia 96939 AAG|GTATGAGATT...TCTACTTTAATA/TCTACTTTAATA...ATCAG|GAA 0 1 42.444
210096492 GT-AG 0 0.0001772241314353 6431 rna-XM_034832200.1 38062820 2 2685012 2691442 Vitis riparia 96939 CAG|GTATGGATTT...GTGACTTTGACT/CTTTGACTCATG...TTCAG|CAT 0 1 48.446
210096493 GT-AG 0 1.000000099473604e-05 327 rna-XM_034832200.1 38062820 3 2684008 2684334 Vitis riparia 96939 ATG|GTAAGCACTA...CTTTCTTTTTTT/ATGCTATTCACT...TACAG|GCA 2 1 72.633
210096494 GT-AG 0 0.0208008948867354 134 rna-XM_034832200.1 38062820 4 2683591 2683724 Vitis riparia 96939 ATG|GTATATATTT...ACTTTTTTAGCT/GTTTCTCTTATG...CATAG|GTA 0 1 82.744
210096495 GT-AG 0 3.307544263333514e-05 1587 rna-XM_034832200.1 38062820 5 2681714 2683300 Vitis riparia 96939 CAG|GTACAGTAAT...ATTATCTTGATA/ATAATTTTTATT...TGCAG|CAA 2 1 93.105

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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]);