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 = 33469721

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Suggested facets: in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
187538661 GT-AG 0 1.000000099473604e-05 334 rna-XM_021463150.1 33469721 1 10392988 10393321 Sorghum bicolor 4558 CGG|GTAAGATTAG...TCGTCCTTTTTT/CATGTTTTCATC...TACAG|CTC 0 1 66.179
187538662 GT-AG 0 0.0333383977628574 97 rna-XM_021463150.1 33469721 2 10393421 10393517 Sorghum bicolor 4558 GAA|GTATGCATTT...CTATGCTTCACA/CTATGCTTCACA...ATCAG|GGA 0 1 68.247
187538663 GT-AG 0 6.424810647936604e-05 597 rna-XM_021463150.1 33469721 3 10393806 10394402 Sorghum bicolor 4558 AAG|GTACATCCAT...GCATTCTTAATA/ACTTTTCTCATT...AGTAG|GAT 0 1 74.264
187538664 GT-AG 0 0.0014196397136904 525 rna-XM_021463150.1 33469721 4 10395114 10395638 Sorghum bicolor 4558 GGG|GTATGTATTT...TTCTCCTTTCTG/ACATGGTTTATT...TTCAG|GGA 0 1 89.116
187558141 GT-AG 0 7.972343360797683e-05 6570 rna-XM_021463150.1 33469721 5 10395834 10402403 Sorghum bicolor 4558 TAG|GTATGTACTT...TTGTTTTTCATC/TTGTTTTTCATC...TGCAG|GAC   0 93.19

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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]);