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 = 37957393

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Suggested facets: dinucleotide_pair, 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
209597915 GT-AG 0 0.4174091262483782 355 rna-XM_022784536.1 37957393 1 10358913 10359267 Vigna radiata 157791 TGG|GTACCCACCT...TTTTCCTAGAAA/TAGAAATTCATT...AACAG|AGA 2 1 12.109
209597916 GT-AG 0 1.000000099473604e-05 86 rna-XM_022784536.1 37957393 2 10360376 10360461 Vigna radiata 157791 ACT|GTGAGTGAAC...TTTGCCTGATTC/TTTTGCCTGATT...CACAG|GGA 0 1 38.944
209597917 GC-AG 0 1.000000099473604e-05 111 rna-XM_022784536.1 37957393 3 10360750 10360860 Vigna radiata 157791 AAG|GCAAGTTTAC...CCTTCCTTCTTT/AGGTTACTCACA...TGCAG|AAG 0 1 45.919
209597918 GT-AG 0 0.000102248694198 88 rna-XM_022784536.1 37957393 4 10361662 10361749 Vigna radiata 157791 CAG|GTTTTGTTTT...TCCTTTTTGATT/TCCTTTTTGATT...GACAG|GAT 0 1 65.318
209604570 GT-AG 0 0.0067506613423378 348 rna-XM_022784536.1 37957393 5 10362592 10362939 Vigna radiata 157791 CAG|GTACACATTC...TGTATTTTAATA/TGTATTTTAATA...TACAG|ATA   0 85.711
209604571 GT-AG 0 0.0003587656426792 4887 rna-XM_022784536.1 37957393 6 10363173 10368059 Vigna radiata 157791 AAG|GTTTGCATGA...TTCTTTTTGATT/TTCTTTTTGATT...GACAG|GAT   0 91.354

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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]);