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 = 2121827

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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
11621378 GT-AG 0 0.0104063393326838 54 rna-XM_009823473.1 2121827 1 1971466 1971519 Aphanomyces astaci 112090 GTG|GTATTCACCA...CCTTCTTCAATT/CCCTTCTTCAAT...CGTAG|GTG 0 1 18.616
11621379 GT-AG 0 0.0041612494933539 92 rna-XM_009823473.1 2121827 2 1971996 1972087 Aphanomyces astaci 112090 ACG|GTACACGATG...TATTTTTTGACA/TATTTTTTGACA...AGTAG|CTC 2 1 34.081
11621380 GT-AG 0 5.258467751918873e-05 75 rna-XM_009823473.1 2121827 3 1972220 1972294 Aphanomyces astaci 112090 ATG|GTATGCGAAA...ATATCGATAGCA/TAGCAATTAATA...TGTAG|GCT 2 1 38.369
11621381 GT-AG 0 0.0001826626092355 582 rna-XM_009823473.1 2121827 4 1972906 1973487 Aphanomyces astaci 112090 ACG|GTACGCCCTT...AAAATCTTTTCG/AAATATATGACC...TGTAG|CCT 1 1 58.22
11621382 GT-AG 0 1.000000099473604e-05 75 rna-XM_009823473.1 2121827 5 1973855 1973929 Aphanomyces astaci 112090 CAG|GTGGGGTCTT...TTATATTTGAAA/TTATATTTGAAA...GGTAG|ATA 2 1 70.143
11621383 GT-AG 0 6.527112566367894e-05 46 rna-XM_009823473.1 2121827 6 1974108 1974153 Aphanomyces astaci 112090 CAA|GTAGGCATTT...AAATATTTATAT/GAAATATTTATA...GGTAG|GAA 0 1 75.926
11621384 GT-AG 0 1.000000099473604e-05 345 rna-XM_009823473.1 2121827 7 1974406 1974750 Aphanomyces astaci 112090 AAG|GTGCGACTGT...TATATATTGATG/TATGTTTTCATC...TGCAG|GTG 0 1 84.113

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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]);