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 = 4621482

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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
24327905 GT-AG 0 0.0033056063410727 80 rna-XM_010230900.3 4621482 1 72242426 72242505 Brachypodium distachyon 15368 TTG|GTATTTCCTT...TTTTTTTTTTTT/TTTTTTTGTAGT...TGCAG|CAT 1 1 20.759
24327906 GT-AG 0 3.408995474515359e-05 90 rna-XM_010230900.3 4621482 2 72242257 72242346 Brachypodium distachyon 15368 TAG|GTACAATCTC...TCTGTATTGATT/TCTGTATTGATT...GACAG|ATT 2 1 22.493
24327907 GT-AG 0 1.000000099473604e-05 614 rna-XM_010230900.3 4621482 3 72241575 72242188 Brachypodium distachyon 15368 ATG|GTCAGTTAAA...AGCACTTTAGCA/AATGGTCTGACC...TACAG|GAT 1 1 23.985
24327908 GT-AG 0 7.191210826728106e-05 962 rna-XM_010230900.3 4621482 4 72240462 72241423 Brachypodium distachyon 15368 CAG|GTAAACCTTG...AGAACTTTGAAT/ATGTATTTCATT...TTCAG|AAC 2 1 27.299
24327909 GT-AG 0 0.0070499083751252 756 rna-XM_010230900.3 4621482 5 72239089 72239844 Brachypodium distachyon 15368 CAG|GTATGCATTT...TTTTCCTTGCAT/GAAAATTTGACA...ACTAG|GAC 1 1 40.838
24327910 GT-AG 0 1.000000099473604e-05 1106 rna-XM_010230900.3 4621482 6 72237563 72238668 Brachypodium distachyon 15368 CAG|GTAGGGTGTA...TTGCCCTTCAAT/ATGAAGTTCACT...TGCAG|ATT 1 1 50.055

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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]);