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 = 35515677

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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
199619947 GT-AG 0 1.000000099473604e-05 2138 rna-XM_010227820.1 35515677 1 27140 29277 Tinamus guttatus 94827 CTG|GTAAAGGGCA...TGCTCCCTCTCT/TGGGCCCGCAGC...CACAG|TGA 1 1 16.004
199619948 GT-AG 0 1.000000099473604e-05 501 rna-XM_010227820.1 35515677 2 29409 29909 Tinamus guttatus 94827 CAG|GTGAAGAGCG...TGTTGCTTACAT/CTGTTGCTTACA...TATAG|GTC 0 1 30.464
199619949 GT-AG 0 1.000000099473604e-05 210 rna-XM_010227820.1 35515677 3 29941 30150 Tinamus guttatus 94827 CAG|GTAAGCAGAC...GTTGCTTTTCCT/GAGCTGTTCACA...TCCAG|TGA 1 1 33.885
199619950 GT-AG 0 1.000000099473604e-05 353 rna-XM_010227820.1 35515677 4 30309 30661 Tinamus guttatus 94827 CTG|GTGAGTGTCG...ATTCCCTTTGCT/TAACTTAAGATT...TCCAG|CTC 0 1 51.325
199619951 GT-AG 0 1.000000099473604e-05 416 rna-XM_010227820.1 35515677 5 30789 31204 Tinamus guttatus 94827 CTG|GTAAGGAGCA...CTCCCTTTGATC/CTCCCTTTGATC...CCTAG|GAA 1 1 65.342
199619952 GT-AG 0 1.000000099473604e-05 285 rna-XM_010227820.1 35515677 6 31312 31596 Tinamus guttatus 94827 CAG|GTGAATACAT...TTTTCTTTGTTT/ATTTTTTCCAGG...AACAG|AGT 0 1 77.152
199619953 GT-AG 0 1.000000099473604e-05 344 rna-XM_010227820.1 35515677 7 31751 32094 Tinamus guttatus 94827 TGG|GTAAGTCTCT...ATTATCTTGTTT/ACGAGGATTATC...TGCAG|GCC 1 1 94.15

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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]);