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)

6 rows where transcript_id = 33843756

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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
189510815 GT-AG 0 9.43804861627926e-05 2004 rna-gnl|WGS:VXAF|SPITYR_R05860_mrna 33843756 1 1016250 1018253 Spizaetus tyrannus 252798 TCT|GTAAGTGTCA...GACATCTTATTT/CGACATCTTATT...TGTAG|CAT 1 1 11.111
189510816 GT-AG 0 1.000000099473604e-05 737 rna-gnl|WGS:VXAF|SPITYR_R05860_mrna 33843756 2 1018404 1019140 Spizaetus tyrannus 252798 ACC|GTAAGTGACT...GACCTCTCAGTC/TGACCTCTCAGT...CATAG|GGG 1 1 20.635
189510817 GT-AG 0 1.7062215465120016e-05 152 rna-gnl|WGS:VXAF|SPITYR_R05860_mrna 33843756 3 1019261 1019412 Spizaetus tyrannus 252798 TCC|GTAAGTGCCT...TCCTCTTTCTCT/AGGTACATCAGG...CATAG|ACT 1 1 28.254
189510818 GT-AG 0 1.000000099473604e-05 4360 rna-gnl|WGS:VXAF|SPITYR_R05860_mrna 33843756 4 1019560 1023919 Spizaetus tyrannus 252798 AAG|GTGAGGTTCA...TTCTTCTTCCTT/GCTGCTGTAAGC...TACAG|TAC 1 1 37.587
189510819 GT-AG 0 1.000000099473604e-05 1815 rna-gnl|WGS:VXAF|SPITYR_R05860_mrna 33843756 5 1024052 1025866 Spizaetus tyrannus 252798 AAG|GTAAGACCAT...TTCCTCTTGACT/TGTGCTTTTATC...CTTAG|ATG 1 1 45.968
189510820 GT-AG 0 1.000000099473604e-05 1063 rna-gnl|WGS:VXAF|SPITYR_R05860_mrna 33843756 6 1026679 1027741 Spizaetus tyrannus 252798 TCG|GTGAGTCAGC...TGTTCCTGAATG/TTTCCATTCATC...TACAG|GAC 0 1 97.524

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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]);