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)

7 rows where transcript_id = 442679

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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
2571989 GT-AG 0 1.000000099473604e-05 418 rna-XM_044309565.1 442679 7 38962121 38962538 Acropora millepora 45264 TGG|GTGAGTGTGT...AATGCCTCATTG/AAATGCCTCATT...TGCAG|GAA 0 1 78.267
2571990 GT-AG 0 1.000000099473604e-05 247 rna-XM_044309565.1 442679 8 38961697 38961943 Acropora millepora 45264 AAG|GTTGGTTCTT...TATGCTTTAGTT/CTTTAGTTTACT...CGTAG|ACT 0 1 81.256
2585344 GT-AG 0 1.000000099473604e-05 1136 rna-XM_044309565.1 442679 1 38992700 38993835 Acropora millepora 45264 GTG|GTGAGCATAC...TCATCTTTCAAT/TATGTGTTCATC...ACAAG|GGA   0 7.21
2585345 GT-AG 0 1.000000099473604e-05 10455 rna-XM_044309565.1 442679 2 38982106 38992560 Acropora millepora 45264 CGG|GTAGGTGGCT...TTTTTTTTAATC/TTTTTTTTAATC...AAAAG|GGT   0 9.558
2585346 GT-AG 0 1.000000099473604e-05 13727 rna-XM_044309565.1 442679 3 38968234 38981960 Acropora millepora 45264 AAG|GTGAGATCAT...TTAGCCCTATAG/GAGATTATAAAA...TTCAG|GTT   0 12.006
2585347 GT-AG 0 1.000000099473604e-05 1174 rna-XM_044309565.1 442679 4 38966919 38968092 Acropora millepora 45264 TTG|GTAGGCGGAG...TTCTTCTTACGA/TAAATTCTGATA...AATAG|GCA   0 14.387
2585348 GT-AG 0 1.000000099473604e-05 589 rna-XM_044309565.1 442679 5 38966288 38966876 Acropora millepora 45264 CAG|GTGAGTGCTT...TTCGTTTTATTA/ATTCGTTTTATT...CGTAG|GTA   0 15.096

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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]);