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 = 11478721

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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
63113212 GT-AG 0 1.000000099473604e-05 650 rna-DGYR_LOCUS211-2 11478721 1 945456 946105 Dimorphilus gyrociliatus 2664684 TAG|GTGAGTCAAT...AGCTTCTTAATA/AAAATTCTTATC...GAAAG|GTT 1 1 10.071
63113213 GT-AG 0 2.6536824629816093e-05 72 rna-DGYR_LOCUS211-2 11478721 2 946173 946244 Dimorphilus gyrociliatus 2664684 TAG|GTACTGTATA...TTTATGTTATTT/CTTTGTTTTATG...CTTAG|ATG 2 1 12.227
63113214 GT-AG 0 1.000000099473604e-05 63 rna-DGYR_LOCUS211-2 11478721 3 946373 946435 Dimorphilus gyrociliatus 2664684 CAG|GTAAACGAAA...CTCTTTTTATCA/CTTTTTATCACT...CACAG|AAA 1 1 16.345
63113215 GT-AG 0 2.4695815351951903e-05 50 rna-DGYR_LOCUS211-2 11478721 4 946580 946629 Dimorphilus gyrociliatus 2664684 GAG|GTAGGATTTT...GACTCTTTAATG/TCTTTAATGACA...TTCAG|GAG 1 1 20.978
63113216 GT-AG 0 1.000000099473604e-05 60 rna-DGYR_LOCUS211-2 11478721 5 947077 947136 Dimorphilus gyrociliatus 2664684 ACG|GTGGGTTAAT...GGGCTTTTCTCT/ACAGGATTAATA...TACAG|TAC 1 1 35.36
63113217 GT-AG 0 0.0092066331211152 58 rna-DGYR_LOCUS211-2 11478721 6 947602 947659 Dimorphilus gyrociliatus 2664684 GAG|GTTTGCTTTG...AATCTCTTATAA/GAATCTCTTATA...TTCAG|CCA 1 1 50.322
63113218 GT-AG 0 0.0029170889290533 78 rna-DGYR_LOCUS211-2 11478721 7 947774 947851 Dimorphilus gyrociliatus 2664684 TTG|GTACATTTTT...TAAACCTTTCCC/TATACTATAAAC...CATAG|GCT 1 1 53.99

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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]);