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 = 1695645

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
9636729 GT-AG 0 1.000000099473604e-05 604 rna-XM_033247271.1 1695645 1 288712 289315 Anneissia japonica 1529436 TTG|GTAATGACAT...TTATTTTTATGT/GTTATTTTTATG...TTTAG|ACC 1 1 3.229
9636730 GT-AG 0 3.110947297229598e-05 473 rna-XM_033247271.1 1695645 2 289414 289886 Anneissia japonica 1529436 CAG|GTAAATTTAG...ATTCTTTTATAT/TTCATATTTATA...TGTAG|ATA 0 1 13.438
9636731 GT-AG 0 1.887291267515206e-05 413 rna-XM_033247271.1 1695645 3 290035 290447 Anneissia japonica 1529436 AAG|GTACAGATGA...ATTTTTTTAAAT/ATTTTTTTAAAT...TTCAG|GTA 1 1 28.854
9636732 GT-AG 0 1.000000099473604e-05 300 rna-XM_033247271.1 1695645 4 290547 290846 Anneissia japonica 1529436 CAG|GTAAAGATTG...TGTATTTTATTT/TTGTATTTTATT...TGTAG|TTG 1 1 39.167
9636733 GT-AG 0 5.203166885688386e-05 171 rna-XM_033247271.1 1695645 5 290982 291152 Anneissia japonica 1529436 AGG|GTAATTTTTT...ATAATTTTCATT/ATAATTTTCATT...ATCAG|GTG 1 1 53.229
9636734 GT-AG 0 0.0004150602036582 147 rna-XM_033247271.1 1695645 6 291282 291428 Anneissia japonica 1529436 CAG|GTATGTATTT...TATCCCTTCTTT/AATGCATTTATC...TACAG|GGT 1 1 66.667
9636735 GT-AG 0 1.000000099473604e-05 902 rna-XM_033247271.1 1695645 7 291542 292443 Anneissia japonica 1529436 AAG|GTAAATGATA...TGCCTCTCAACC/CCAAACCTCATG...TAAAG|GTT 0 1 78.438

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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]);