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 = 13210857

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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
70382312 GT-AG 0 1.000000099473604e-05 10174 rna-XM_027893348.1 13210857 1 1090750 1100923 Empidonax traillii 164674 AAG|GTAAAAAGTA...GACCTTTTATTC/TGATCTTTCACG...CTTAG|GTT 1 1 2.677
70382313 GT-AG 0 1.000000099473604e-05 1079 rna-XM_027893348.1 13210857 2 1089383 1090461 Empidonax traillii 164674 TTG|GTGAGTTCCT...TTTGTTTTATGT/GTTTGTTTTATG...TACAG|GTC 1 1 13.238
70382314 GT-AG 0 1.0566564773910376e-05 22326 rna-XM_027893348.1 13210857 3 1067026 1089351 Empidonax traillii 164674 TCA|GTAAGTACTC...AAAATCCTAACG/AAAATCCTAACG...TGCAG|GGA 2 1 14.375
70382315 GT-AG 0 0.0002179201014516 3160 rna-XM_027893348.1 13210857 4 1063738 1066897 Empidonax traillii 164674 CTG|GTAAGCTTAC...TTTTTCTGAATC/TTTTTTCTGAAT...TGCAG|CTG 1 1 19.069
70382316 GT-AG 0 4.115213945570406e-05 1748 rna-XM_027893348.1 13210857 5 1061675 1063422 Empidonax traillii 164674 GAT|GTAAGTCTGG...GGGTTTTTGAAA/GGGTTTTTGAAA...TGCAG|ATC 1 1 30.62
70382317 GT-AG 0 0.1038338668369435 1618 rna-XM_027893348.1 13210857 6 1059811 1061428 Empidonax traillii 164674 GTA|GTATGTATTC...AATGTCTTAAAA/AAATGTCTTAAA...AACAG|GTC 1 1 39.641
70382318 GT-AG 0 0.0009449820520563 1630 rna-XM_027893348.1 13210857 7 1057978 1059607 Empidonax traillii 164674 CAG|GTATTTCTTA...GGTATTTTACTG/ATTTTACTGACT...TTCAG|GCT 0 1 47.085

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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]);