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 = 27699011

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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
153875597 GT-AG 0 1.000000099473604e-05 63 rna-XM_009516362.1 27699011 1 2895911 2895973 Phytophthora sojae 67593 GCG|GTGGAGGCAA...CGTCCTCTGAAT/CGTCCTCTGAAT...CCAAG|TCA 0 1 24.187
153875598 GT-AG 0 0.0005801600558062 135 rna-XM_009516362.1 27699011 2 2894507 2894641 Phytophthora sojae 67593 CCC|GTTACTACTA...CAGGGTTTGACC/CAGGGTTTGACC...CAGAG|CCA 0 1 34.227
153875599 GT-AG 0 1.000000099473604e-05 135 rna-XM_009516362.1 27699011 3 2894198 2894332 Phytophthora sojae 67593 GGG|GTTAACATAG...AGCCTCGTGACG/AGCCTCGTGACG...GAGAG|CCT 0 1 35.604
153875600 GT-AG 0 1.000000099473604e-05 171 rna-XM_009516362.1 27699011 4 2893663 2893833 Phytophthora sojae 67593 AAA|GTCAGCGCTC...ACTTTCCTGAAG/ACTTTCCTGAAG...ACAAG|ACA 1 1 38.484
153875601 GT-AG 0 1.000000099473604e-05 75 rna-XM_009516362.1 27699011 5 2893022 2893096 Phytophthora sojae 67593 GCT|GTGGACGCTG...CGGCCCCCGATG/CGATGCATCAAG...CAAAG|TCA 0 1 42.962
153875602 GT-AG 0 1.000000099473604e-05 99 rna-XM_009516362.1 27699011 6 2892794 2892892 Phytophthora sojae 67593 ATC|GTGGGGATCC...AACGTGTTCATG/AACGTGTTCATG...TCAAG|AGC 0 1 43.983

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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]);