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 = 34243630

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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
191722597 GT-AG 0 2.965079306398559e-05 1917 rna-XM_009674251.1 34243630 1 17923 19839 Struthio camelus 8801 CAG|GTAAATTATA...GTTTTCTAAGCT/TCTAAGCTTATA...TTCAG|AGT 1 1 22.592
191722598 GT-AG 0 1.000000099473604e-05 355 rna-XM_009674251.1 34243630 2 17423 17777 Struthio camelus 8801 CAG|GTAATATCTT...TATACTTTTTCT/ATTAATTTCAAA...TTCAG|GGG 2 1 34.953
191722599 GT-AG 0 1.000000099473604e-05 4443 rna-XM_009674251.1 34243630 3 12869 17311 Struthio camelus 8801 CCA|GTTAGTTGCT...TCAGTTTTACAA/CTCAGTTTTACA...AATAG|GTC 2 1 44.416
191722600 GT-AG 0 1.000000099473604e-05 2466 rna-XM_009674251.1 34243630 4 10336 12801 Struthio camelus 8801 AAT|GTGAGTATTT...CTGTTTTTAGCT/CTATTCCTGACT...AACAG|ACC 0 1 50.128
191722601 GT-AG 0 1.000000099473604e-05 697 rna-XM_009674251.1 34243630 5 9513 10209 Struthio camelus 8801 AGG|GTAAAAATGT...CAGGTTTTAAAG/AGTGTATTGATC...CTTAG|GTT 0 1 60.87
191722602 GT-AG 0 1.000000099473604e-05 948 rna-XM_009674251.1 34243630 6 8384 9331 Struthio camelus 8801 AGG|GTAGGCAGAG...TTCTTTCTGACA/TTCTTTCTGACA...TTCAG|AGG 1 1 76.3
191722603 GT-AG 0 1.000000099473604e-05 168 rna-XM_009674251.1 34243630 7 8092 8259 Struthio camelus 8801 AAG|GTTTGACTTT...GCCCTCTTCACC/CCAGTTCTGATC...CACAG|GTA 2 1 86.871

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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]);