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 = 11997930

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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
65073366 GT-AG 0 1.000000099473604e-05 5079 rna-XM_026098264.1 11997930 2 1228612 1233690 Dromaius novaehollandiae 8790 CAG|GTAAGGAGTT...TTTTCTTTACTT/CTTTTCTTTACT...TTTAG|AGT 2 1 67.758
65073367 GT-AG 0 1.000000099473604e-05 5688 rna-XM_026098264.1 11997930 3 1233789 1239476 Dromaius novaehollandiae 8790 AAG|GTAAGACAGT...AATGTTTCATCT/CAATGTTTCATC...TCTAG|GTG 1 1 71.626
65073368 GT-AG 0 1.000000099473604e-05 681 rna-XM_026098264.1 11997930 4 1239639 1240319 Dromaius novaehollandiae 8790 TTG|GTAAGCAAAA...TATACCTCTTTT/AAAAAACACACA...CACAG|GTC 1 1 78.019
65073369 GT-AG 0 3.435629849687703e-05 2192 rna-XM_026098264.1 11997930 5 1240419 1242610 Dromaius novaehollandiae 8790 AAG|GTAAATATTC...TTTTTTTTAAAG/TTAAAGCTCATT...TTCAG|AAA 1 1 81.926
65073370 GT-AG 0 0.0003310110756429 2562 rna-XM_026098264.1 11997930 6 1242892 1245453 Dromaius novaehollandiae 8790 CAG|GTAATCTTCT...TTATACTTACTT/TTTATACTTACT...TTTAG|AAA 0 1 93.015
65074130 GT-AG 0 2.3202810871761916e-05 3150 rna-XM_026098264.1 11997930 1 1223866 1227015 Dromaius novaehollandiae 8790 CGT|GTAAGTCCAG...GTTACCTTACCA/TGTTACCTTACC...TGTAG|GGT   0 6.827

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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]);