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 = 4621406

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
24326375 GT-AG 0 0.0014221815557437 1493 rna-XM_010230865.3 4621406 4 71885198 71886690 Brachypodium distachyon 15368 CTG|GTACGTTTTC...AATTTCTTCTTG/TATATGCTAATT...AACAG|ACA 1 1 17.695
24326376 GT-AG 0 0.3629702036925345 150 rna-XM_010230865.3 4621406 5 71880882 71881031 Brachypodium distachyon 15368 CAG|GTATCACTCA...ATCTTCTTGACT/ATCTTCTTGACT...GTCAG|CTG 0 1 68.186
24326377 GT-AG 0 0.0409960870797504 238 rna-XM_010230865.3 4621406 6 71879141 71879378 Brachypodium distachyon 15368 TTG|GTATGCTGCT...TCTCTTTTACTT/ATTATATTCACT...TTCAG|GAA 0 1 86.402
24358192 GT-AG 0 1.000000099473604e-05 307 rna-XM_010230865.3 4621406 1 71887929 71888235 Brachypodium distachyon 15368 AAG|GTAAGTAAAT...TTTTCCTTTGTG/GTGCGTTTCACA...CACAG|TGC   0 13.514
24358193 GT-AG 0 0.000134422704272 546 rna-XM_010230865.3 4621406 2 71887234 71887779 Brachypodium distachyon 15368 GCG|GTACGCCACT...ACTTTGTTGAAC/GATATACTCATT...TGCAG|TGG   0 15.319
24358194 GT-AG 0 1.000000099473604e-05 104 rna-XM_010230865.3 4621406 3 71887040 71887143 Brachypodium distachyon 15368 GAG|GTGAACAGAT...TTCTTTTCAACT/CTTCTTTTCAAC...TGCAG|GTA   0 16.41

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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]);