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 = 34796169

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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
196000182 GT-AG 0 0.0002975331043393 545 rna-XM_043842344.1 34796169 3 10669244 10669788 Telopea speciosissima 54955 AAG|GTACGTTCCC...TTGTTTTTGATT/TTGTTTTTGATT...TGAAG|GTC 1 1 3.331
196000183 GT-AG 0 0.0054009979170326 1953 rna-XM_043842344.1 34796169 4 10670653 10672605 Telopea speciosissima 54955 CAG|GTATACGTTT...TTGTGCTTACTT/ATTGTGCTTACT...TACAG|GGG 1 1 19.408
196000184 GT-AG 0 1.000000099473604e-05 6260 rna-XM_043842344.1 34796169 5 10673791 10680050 Telopea speciosissima 54955 CTG|GTAAGATCCT...CAAATCTTGATA/GTAAATCTCATT...TGCAG|CAG 1 1 41.459
196014298 GT-AG 0 8.694146074563876e-05 2538 rna-XM_043842344.1 34796169 1 10657160 10659697 Telopea speciosissima 54955 TCT|GTCTAATACT...ATTGCATTCAAT/ATTGCATTCAAT...CCTAG|AGT   0 0.186
196014299 GT-AG 0 0.0511720964840861 9290 rna-XM_043842344.1 34796169 2 10659707 10668996 Telopea speciosissima 54955 CGT|GTATATACAG...GGTTCTTTAGCC/CGGTTCTTTAGC...TGAAG|GGC   0 0.354

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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]);