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)

8 rows where transcript_id = 31460360

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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
175007293 GT-AG 0 1.000000099473604e-05 19993 rna-XM_016140064.2 31460360 1 25688044 25708036 Rousettus aegyptiacus 9407 CAG|GTGAGGGGCT...TATTTTTTAAAT/ATTGTTTTTATT...TTTAG|ACC 0 1 4.106
175007294 GT-AG 0 9.694845190887848e-05 1542 rna-XM_016140064.2 31460360 2 25708192 25709733 Rousettus aegyptiacus 9407 ATT|GTAAGTTTAA...TAACTATTGACT/CTGTATTTGATT...TGTAG|GAG 2 1 6.791
175007295 GT-AG 0 1.000000099473604e-05 4184 rna-XM_016140064.2 31460360 3 25709816 25713999 Rousettus aegyptiacus 9407 CAG|GTAAGTTGAT...TATTGCTTATTA/GTATTGCTTATT...TTTAG|GAG 0 1 8.212
175007296 GT-AG 0 5.320582547656268e-05 5841 rna-XM_016140064.2 31460360 4 25714133 25719973 Rousettus aegyptiacus 9407 AAG|GTAAGCCTTA...ACTGTTTTATCT/AACTGTTTTATC...TTTAG|TCA 1 1 10.516
175007297 GT-AG 0 1.000000099473604e-05 18767 rna-XM_016140064.2 31460360 5 25720177 25738943 Rousettus aegyptiacus 9407 GAG|GTGAGTAAAG...GTCATCTTATTT/TTCTTTTTTACT...GATAG|ATT 0 1 14.033
175007298 GT-AG 0 1.000000099473604e-05 5299 rna-XM_016140064.2 31460360 6 25739081 25744379 Rousettus aegyptiacus 9407 CTG|GTGAGTACAT...GTTGCTTTAAAT/TTTTATTTAATC...TATAG|GGA 2 1 16.407
175007299 GT-AG 0 1.000000099473604e-05 1646 rna-XM_016140064.2 31460360 7 25744522 25746167 Rousettus aegyptiacus 9407 GAA|GTGAGTAATT...TTTGCCATATAA/TAATATCTCATC...TACAG|GTT 0 1 18.867
175007300 GT-AG 0 1.000000099473604e-05 3148 rna-XM_016140064.2 31460360 8 25746201 25749348 Rousettus aegyptiacus 9407 AAG|GTGAGGGTTG...CCCTGCTTATCT/AAAAAATTAACT...TATAG|GCA 0 1 19.439

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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]);