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 = 1028963

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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
5357672 GT-AG 0 1.000000099473604e-05 93 rna-AFUS01_LOCUS66 1028963 1 105503 105595 Allacma fusca 39272 TTG|GTACGAAAAA...ACGTTTTTAAAA/AAAATGTTAACT...GACAG|TAA 1 1 7.167
5357673 GT-AG 0 4.6525640026435725e-05 189 rna-AFUS01_LOCUS66 1028963 2 105727 105915 Allacma fusca 39272 ATG|GTGACTTGAT...AGAATCTTATTT/CTTGATTTGATT...TACAG|CTT 0 1 16.024
5357674 GT-AG 0 1.000000099473604e-05 136 rna-AFUS01_LOCUS66 1028963 3 106076 106211 Allacma fusca 39272 CGG|GTGAGTTTAG...GATGCTCTAATT/GATGCTCTAATT...TTTAG|GTT 1 1 26.842
5357675 GT-AG 0 1.000000099473604e-05 199 rna-AFUS01_LOCUS66 1028963 4 106336 106534 Allacma fusca 39272 CAT|GTAAATAATA...AATATCCTGATG/GAGTTACTAATT...TGCAG|ATA 2 1 35.227
5357676 GT-AG 0 1.000000099473604e-05 117 rna-AFUS01_LOCUS66 1028963 5 106740 106856 Allacma fusca 39272 AGG|GTAATTAAGG...AATAAATTAATG/CATGCGCTCATT...GATAG|GTT 0 1 49.087
5357677 GT-AG 0 0.0010437013802222 101 rna-AFUS01_LOCUS66 1028963 6 107312 107412 Allacma fusca 39272 CAT|GTATGATATA...CAACTTTTATTT/CCAACTTTTATT...TCAAG|GGG 2 1 79.851
5357678 GT-AG 0 0.0231375677085063 102 rna-AFUS01_LOCUS66 1028963 7 107442 107543 Allacma fusca 39272 AAG|GTATTTTTTT...CTTGCCTGAATT/ACTTGCCTGAAT...TTTAG|GGC 1 1 81.812

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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]);