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 = 4157790

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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
21481542 GT-AG 0 1.000000099473604e-05 494 rna-XM_039027860.1 4157790 2 17256177 17256670 Benincasa hispida 102211 CAG|GTTCTTCATT...TTTACCTTTTCT/CCTTTTCTTATG...TTCAG|GAC 0 1 38.699
21481543 GT-AG 0 3.412003599207063e-05 286 rna-XM_039027860.1 4157790 3 17256893 17257178 Benincasa hispida 102211 ACG|GTTTGTATTT...TTACTCTTTTTT/GTTCAATTAACT...TGCAG|GGT 0 1 44.715
21481544 GC-AG 0 1.000000099473604e-05 514 rna-XM_039027860.1 4157790 4 17257248 17257761 Benincasa hispida 102211 GAG|GCAAGTTTCA...CATGTTTTAAAC/CATGTTTTAAAC...CTCAG|GTA 0 1 46.585
21481545 GT-AG 0 1.000000099473604e-05 100 rna-XM_039027860.1 4157790 5 17258032 17258131 Benincasa hispida 102211 ACG|GTGAGTTTCA...TTTTCCTTGAGT/CTTGAGTTAATT...TTCAG|TGC 0 1 53.902
21481546 GT-AG 0 0.0108225289848934 1344 rna-XM_039027860.1 4157790 6 17258483 17259826 Benincasa hispida 102211 CAG|GTAACTTTAA...TTTGTCTTCTCT/GTCTTCTCTATT...AACAG|TAT 0 1 63.415
21481547 GT-AG 0 2.081383816638548e-05 178 rna-XM_039027860.1 4157790 7 17260105 17260282 Benincasa hispida 102211 AAG|GTAAGCCTCT...TTTGCCCTAGTA/ATTTATTTCATC...GCAAG|AGT 2 1 70.949
21490878 GT-AG 0 5.260407654421911e-05 2897 rna-XM_039027860.1 4157790 1 17252001 17254897 Benincasa hispida 102211 CTA|GTAAGTTCTG...AATTTATTGAAA/GAAATACTGACT...TACAG|TTG   0 4.472

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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]);