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)

8 rows where transcript_id = 12947920

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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
69095581 GT-AG 0 1.000000099473604e-05 1008 rna-XM_010914689.2 12947920 1 4812661 4813668 Elaeis guineensis 51953 GAG|GTGAGTTTTG...TTATTATTACCG/TTGACATTTATT...ACCAG|AGG 0 1 53.75
69095582 GT-AG 0 0.0001279072305171 90 rna-XM_010914689.2 12947920 2 4814060 4814149 Elaeis guineensis 51953 TAG|GTATGATTAT...CTATTATTGACA/CTATTATTGACA...TGTAG|GAA 1 1 65.387
69095583 GT-AG 0 1.000000099473604e-05 948 rna-XM_010914689.2 12947920 3 4814281 4815228 Elaeis guineensis 51953 AAG|GTGGACAATA...AAATTCTTTGTG/TAAATTCTGATA...TGCAG|AAA 0 1 69.286
69095584 GT-AG 0 0.0001142085328924 132 rna-XM_010914689.2 12947920 4 4815577 4815708 Elaeis guineensis 51953 CTT|GTAAGTCCTT...CTATTCTTGAAT/ATAATATTTACA...ACCAG|GCA 0 1 79.643
69095585 GT-AG 0 1.000000099473604e-05 79 rna-XM_010914689.2 12947920 5 4815866 4815944 Elaeis guineensis 51953 TTG|GTAATAAAAT...TAATTTTTGATC/TAATTTTTGATC...ATCAG|GGA 1 1 84.315
69095586 GT-AG 0 1.68086942418336e-05 102 rna-XM_010914689.2 12947920 6 4816238 4816339 Elaeis guineensis 51953 GAG|GTAACACCGT...ATTCCTTTCACT/TTCTTTCTGACA...TTCAG|GCC 0 1 93.036
69095587 GT-AG 0 0.0570910209545612 134 rna-XM_010914689.2 12947920 7 4816400 4816533 Elaeis guineensis 51953 CTT|GTATGATTTT...TCTTTCTTAAAG/AAGTTGTTCATT...AACAG|GAT 0 1 94.821
69095588 GT-AG 0 1.000000099473604e-05 556 rna-XM_010914689.2 12947920 8 4816627 4817182 Elaeis guineensis 51953 GAG|GTGAGGTTGC...TTTTTTTTTAAT/TTTTTGCTAATT...CCCAG|GAT 0 1 97.589

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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]);