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 = 16807700

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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
89547728 GT-AG 0 1.3359407533050668e-05 2274 rna-XM_009916915.1 16807700 1 34266 36539 Haliaeetus albicilla 8969 AAG|GTATTGGTAT...GCTGCTATAACG/ACGTGTTTTATT...TTCAG|ATC 1 1 9.03
89547729 GT-AG 0 0.0638158530727876 818 rna-XM_009916915.1 16807700 2 33318 34135 Haliaeetus albicilla 8969 CAG|GTATTTTTAA...TTTTTTTTAACC/TTTTTTTTAACC...AATAG|GTA 2 1 21.518
89547730 GT-AG 0 1.000000099473604e-05 1448 rna-XM_009916915.1 16807700 3 31752 33199 Haliaeetus albicilla 8969 CAG|GTAATTCTCC...AACTTCTTGCTC/ACTGTTCTAACT...TCCAG|AAT 0 1 32.853
89547731 GT-AG 0 1.5142798831955411e-05 1181 rna-XM_009916915.1 16807700 4 30492 31672 Haliaeetus albicilla 8969 AAA|GTAAGTACTG...ACAGCCTTAAAT/GTAATACTAATG...GATAG|GTG 1 1 40.442
89547732 GT-AG 0 1.000000099473604e-05 3242 rna-XM_009916915.1 16807700 5 27158 30399 Haliaeetus albicilla 8969 CTG|GTAAGTACTT...TTAGGTTTGAAA/TTAGGTTTGAAA...TGCAG|GAC 0 1 49.28
89547733 GT-AG 0 1.415234740958042e-05 1595 rna-XM_009916915.1 16807700 6 25449 27043 Haliaeetus albicilla 8969 CAG|GTACAGTAAC...ATTTTTTTATTA/TATTTTTTTATT...CCTAG|AAT 0 1 60.231
89547734 GT-AG 0 1.666491658166777e-05 796 rna-XM_009916915.1 16807700 7 24578 25373 Haliaeetus albicilla 8969 AAA|GTAAGTATGC...TTTATTTTATTT/TTTTATTTTATT...TTAAG|GTT 0 1 67.435
89547735 GT-AG 0 1.000000099473604e-05 1352 rna-XM_009916915.1 16807700 8 23112 24463 Haliaeetus albicilla 8969 GTG|GTAAGTATAC...GAGATCTTCACT/GAGATCTTCACT...CTTAG|CTG 0 1 78.386

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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]);