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)

5 rows where transcript_id = 32241307

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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
180024187 GT-AG 0 1.1521367566249564e-05 4828 rna-XM_035733899.1 32241307 1 518153 522980 Schistosoma haematobium 6185 TTG|GTAAGTTGTA...TCTTCCGTAAAA/TAGTTTATTATT...TAAAG|GTA 1 1 7.413
180024188 GT-AG 0 0.0004396225978783 1688 rna-XM_035733899.1 32241307 2 523351 525038 Schistosoma haematobium 6185 TAA|GTAAGTTTTG...TCTCTCTAAATA/TATAGTTTCAAC...GTTAG|ATA 2 1 24.882
180024189 GT-AG 0 1.000000099473604e-05 1850 rna-XM_035733899.1 32241307 3 525362 527211 Schistosoma haematobium 6185 AAG|GTCAGTAGAC...TGTTTTGTATCT/ATATCAGTGACT...TCTAG|GAC 1 1 40.132
180024190 GT-AG 0 4.614972020472441e-05 6711 rna-XM_035733899.1 32241307 4 527413 534123 Schistosoma haematobium 6185 AAA|GTAAGTGTTG...TTTTTTTTAAAT/TTTTTTTTAAAT...AATAG|GTC 1 1 49.622
180024191 GT-AG 0 0.0004171912233568 1605 rna-XM_035733899.1 32241307 5 534425 536029 Schistosoma haematobium 6185 TGT|GTAAGTCTTA...ATATACTTAATA/AATATATTTACA...TTCAG|TTA 2 1 63.834

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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]);