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 = 12917204

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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
68846948 GT-AG 0 1.605027453205808e-05 2747 rna-XM_009647754.2 12917204 2 67673 70419 Egretta garzetta 188379 GAG|GTAAATATTG...TTTGACTTATTT/ATTTGACTTATT...TACAG|ATA 2 1 37.048
68846949 GT-AG 0 2.2473940196978618e-05 2452 rna-XM_009647754.2 12917204 3 65134 67585 Egretta garzetta 188379 TAG|GTATGGAACT...TGCTGCTTATCT/CAAATTCTCATG...CTCAG|AAT 2 1 43.469
68846950 GT-AG 0 1.000000099473604e-05 2299 rna-XM_009647754.2 12917204 4 62725 65023 Egretta garzetta 188379 TGG|GTAAGTGGAT...GCTCTTTTGATA/CTCTTTATTATT...TTAAG|GTA 1 1 51.587
68846951 GT-AG 0 1.000000099473604e-05 2684 rna-XM_009647754.2 12917204 5 59869 62552 Egretta garzetta 188379 CAG|GTATGAGAAC...TTTCTCTTGACG/AGTTGATTTATT...CGCAG|GTG 2 1 64.28
68846952 GT-AG 0 1.000000099473604e-05 2129 rna-XM_009647754.2 12917204 6 57548 59676 Egretta garzetta 188379 AAG|GTAAGGGAAA...TTGGTTTTAATT/TTGGTTTTAATT...TTCAG|CTT 2 1 78.45
68846953 GT-AG 0 1.000000099473604e-05 1768 rna-XM_009647754.2 12917204 7 55720 57487 Egretta garzetta 188379 CAT|GTAAGTGAAA...TGTTTCTTCCTT/TGGGACTTCAGC...TGCAG|CAT 2 1 82.878
68846959 GT-AG 0 1.000000099473604e-05 7323 rna-XM_009647754.2 12917204 1 70951 78273 Egretta garzetta 188379 AAG|GTCATGGTCA...TTTTTTTTAAGT/TTTTTTTTAAGT...TTTAG|GGG   0 9.225

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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]);