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 = 11478671

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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
63112705 GT-AG 0 1.000000099473604e-05 66 rna-DGYR_LOCUS259 11478671 1 1092869 1092934 Dimorphilus gyrociliatus 2664684 CAG|GTCAATTTAT...TTATTCTTAGCT/CTTTTTTTTATT...AATAG|ATT 0 1 5.093
63112706 GT-AG 0 0.000604989504378 73 rna-DGYR_LOCUS259 11478671 2 1093183 1093255 Dimorphilus gyrociliatus 2664684 ATG|GTACGTTTCT...AATGCCTTCTTT/TTGTAATTCACC...TTAAG|CTT 2 1 10.782
63112707 GT-AG 0 1.000000099473604e-05 53 rna-DGYR_LOCUS259 11478671 3 1093615 1093667 Dimorphilus gyrociliatus 2664684 TAG|GTAGGACTAT...TGTTTATTAACG/TATTTGTTTATT...AACAG|CCA 1 1 19.018
63112708 GT-AG 0 1.0781430234129477e-05 90 rna-DGYR_LOCUS259 11478671 4 1093863 1093952 Dimorphilus gyrociliatus 2664684 TAG|GTCTGTGGGA...TATTTCTTATTC/CTATTTCTTATT...TTTAG|TTA 1 1 23.492
63112709 GT-AG 0 0.0037688945872767 63 rna-DGYR_LOCUS259 11478671 5 1094083 1094145 Dimorphilus gyrociliatus 2664684 TAA|GTTTGTTTAA...TCTTCTTTAAAT/TTAAATCTTACT...TATAG|GTT 2 1 26.474
63112710 GT-AG 0 0.0104331169222739 54 rna-DGYR_LOCUS259 11478671 6 1094386 1094439 Dimorphilus gyrociliatus 2664684 CAG|GTATATTGCA...TTACTTTTAAAG/AAAGTGTTTACT...AATAG|ACT 2 1 31.98
63112711 GT-AG 0 0.0024962070517393 77 rna-DGYR_LOCUS259 11478671 7 1097182 1097258 Dimorphilus gyrociliatus 2664684 TGT|GTAAGTTTTT...TTCTTTTTCACT/TTCTTTTTCACT...ATAAG|CTA 2 1 94.884

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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]);