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 = 34322269

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Suggested facets: 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
192366710 GT-AG 0 1.000000099473604e-05 412 rna-XM_022935335.1 34322269 2 2072816 2073227 Stylophora pistillata 50429 CGG|GTAAGTCTCC...TTATCATTATTT/CAATTTATCATT...CTCAG|GGC 2 1 34.377
192366711 GT-AG 0 1.000000099473604e-05 306 rna-XM_022935335.1 34322269 3 2072336 2072641 Stylophora pistillata 50429 GAG|GTTAGTCTTG...TATGACTTAAAA/AATTTTATGACT...TTCAG|GAG 2 1 43.932
192366712 GT-AG 0 1.000000099473604e-05 345 rna-XM_022935335.1 34322269 4 2071894 2072238 Stylophora pistillata 50429 CAG|GTCAGTAATT...CAGTGTTTAACA/CAGTGTTTAACA...TTCAG|GTG 0 1 49.259
192366713 GT-AG 0 1.000000099473604e-05 86 rna-XM_022935335.1 34322269 5 2071694 2071779 Stylophora pistillata 50429 GAG|GTTAGTGATT...TTTATATTAATT/TTTATATTAATT...AATAG|GTA 0 1 55.519
192366714 GT-AG 0 1.000000099473604e-05 317 rna-XM_022935335.1 34322269 6 2071306 2071622 Stylophora pistillata 50429 GAG|GTTAGAAAGT...TTTCCTTTACTT/ACTTTTCTGATA...TACAG|AGT 2 1 59.418
192367568 GT-AG 0 1.000000099473604e-05 145 rna-XM_022935335.1 34322269 1 2074066 2074210 Stylophora pistillata 50429 AAG|GTGAGTTCAG...AATCTTTTCATC/AATCTTTTCATC...TTCAG|AAC   0 8.731

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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]);