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 = 94465

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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
498452 GT-AG 0 1.000000099473604e-05 1403 rna-XM_009074390.1 94465 1 179 1581 Acanthisitta chloris 57068 TAG|GTAGTGGGGT...GTGTATTTAATA/TATTTAATAATT...TACAG|GTT 2 1 16.92
498453 GT-AG 0 1.000000099473604e-05 1135 rna-XM_009074390.1 94465 2 1665 2799 Acanthisitta chloris 57068 ATG|GTAAGGTTTT...TGCACTTTATTT/TTTTTTCTAATG...TTCAG|GAC 1 1 25.329
498454 GT-AG 0 1.000000099473604e-05 1212 rna-XM_009074390.1 94465 3 2850 4061 Acanthisitta chloris 57068 AAG|GTAGGTGTGC...CTTATCTTATAT/ACTTATCTTATA...TCTAG|AAA 0 1 30.395
498455 GT-AG 0 1.000000099473604e-05 1176 rna-XM_009074390.1 94465 4 4165 5340 Acanthisitta chloris 57068 TTG|GTAAATAAAT...TTTTTCTTCATC/TTTTTCTTCATC...ATCAG|ATA 1 1 40.831
498456 GT-AG 0 1.000000099473604e-05 806 rna-XM_009074390.1 94465 5 5495 6300 Acanthisitta chloris 57068 GAA|GTAAGTGTTT...TATATTTCAAAT/GTATATTTCAAA...TACAG|ACA 2 1 56.434
498457 GT-AG 0 1.000000099473604e-05 3067 rna-XM_009074390.1 94465 6 6443 9509 Acanthisitta chloris 57068 AAG|GTTAGAAAGT...TATGCTGTATCT/CTGTATCTAAGT...CCCAG|GAT 0 1 70.821
498458 GT-AG 0 1.000000099473604e-05 6017 rna-XM_009074390.1 94465 7 9576 15592 Acanthisitta chloris 57068 AAG|GTGGGTAAAG...TTATTTTTACTT/TTTATTTTTACT...TTCAG|GTG 0 1 77.508
498459 GT-AG 0 1.000000099473604e-05 3812 rna-XM_009074390.1 94465 8 15715 19526 Acanthisitta chloris 57068 TAG|GTAGGAAAAG...TATGTTTTGACT/TATGTTTTGACT...TGCAG|ATT 2 1 89.868

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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]);