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 = 22411687

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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
121674704 GT-AG 0 0.0003298462105678 84 rna-gnl|WGS:JAEPRB|INT45_00000053-RA 22411687 1 178701 178784 Mucor circinatus 2054153 AGA|GTAAGTTTAC...TTTTTTTTGTTT/AAAAAATTGATT...CTTAG|TTA 2 1 2.178
121674705 GT-AG 0 1.000000099473604e-05 101 rna-gnl|WGS:JAEPRB|INT45_00000053-RA 22411687 2 180301 180401 Mucor circinatus 2054153 GAA|GTAAGACATC...ATGACTTTATAT/AATGGACTCATG...ATTAG|ACT 0 1 55.427
121674706 GT-AG 0 1.000000099473604e-05 99 rna-gnl|WGS:JAEPRB|INT45_00000053-RA 22411687 3 180744 180842 Mucor circinatus 2054153 CAG|GTAAAAAATA...CTCTCTATAACA/GCGTTACTAAAA...ATAAG|CCT 0 1 67.439
121674707 GT-AG 0 1.000000099473604e-05 118 rna-gnl|WGS:JAEPRB|INT45_00000053-RA 22411687 4 181324 181441 Mucor circinatus 2054153 TAG|GTAAGGAAGG...CCAATTTTACTA/ATTTTACTAAGC...TATAG|CTC 1 1 84.334
121674708 GT-AG 0 3.297241966396985e-05 86 rna-gnl|WGS:JAEPRB|INT45_00000053-RA 22411687 5 181684 181769 Mucor circinatus 2054153 ATA|GTAAGTTTAA...TAAGTTCTAATT/TAAGTTCTAATT...ATTAG|GTT 0 1 92.835
121674709 GT-AG 0 1.000000099473604e-05 70 rna-gnl|WGS:JAEPRB|INT45_00000053-RA 22411687 6 181817 181886 Mucor circinatus 2054153 TGG|GTAAGATAAC...AAGTATTTAATA/CCTATATTTATT...TATAG|TTT 2 1 94.485

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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]);