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)

8 rows where transcript_id = 21575173

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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
116649405 GT-AG 0 1.000000099473604e-05 8700 rna-XM_008936947.1 21575173 1 9771 18470 Merops nubicus 57421 ATG|GTAAGCAGTT...GTATCATTAAAG/CAGTAGCTAATG...TTTAG|GTT 2 1 11.181
116649406 GT-AG 0 1.000000099473604e-05 619 rna-XM_008936947.1 21575173 2 9042 9660 Merops nubicus 57421 AAG|GTAAGTGACG...TACATCTTACTA/ATTAATCTCATT...TTCAG|CTT 1 1 21.1
116649407 GT-AG 0 0.0025514989818238 3620 rna-XM_008936947.1 21575173 3 5330 8949 Merops nubicus 57421 TTG|GTATGTATCA...TCATTTTTATAG/GTATTTGTCATT...TTAAG|ACT 0 1 29.396
116649408 GT-AG 0 1.000000099473604e-05 399 rna-XM_008936947.1 21575173 4 4816 5214 Merops nubicus 57421 AAA|GTAAGGCAAC...CACTCTTTATTT/CCACTCTTTATT...TTTAG|AGT 1 1 39.766
116649409 GT-AG 0 1.000000099473604e-05 1227 rna-XM_008936947.1 21575173 5 3461 4687 Merops nubicus 57421 CAG|GTAAGTCAAA...AATCTCTTCATT/AATCTCTTCATT...CATAG|GTG 0 1 51.307
116649410 GT-AG 0 1.000000099473604e-05 1000 rna-XM_008936947.1 21575173 6 2312 3311 Merops nubicus 57421 CAG|GTAAGACATA...AATCCCATATTT/AATAAATTGACA...AACAG|ACA 2 1 64.743
116649411 GT-AG 0 0.0001677769430297 414 rna-XM_008936947.1 21575173 7 1747 2160 Merops nubicus 57421 GCT|GTAAGTAGTA...CTCTTCTTACTT/ATTTTCTTCACT...CCAAG|GTT 0 1 78.359
116649412 GT-AG 0 1.000000099473604e-05 1271 rna-XM_008936947.1 21575173 8 310 1580 Merops nubicus 57421 AAG|GTAAAATATT...CATACGTTAATA/ATAGGGTTGACC...ACCAG|GTA 1 1 93.327

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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]);