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)

5 rows where transcript_id = 21930894

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Suggested facets: in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
118866266 GT-AG 0 4.482753799272181e-05 999 rna-XM_035002173.1 21930894 4 13187 14185 Mirounga leonina 9715 CAG|GTAGTCAACT...TTTTCCTTTCCA/CAACTTTTCATT...TCTAG|AGA 1 1 32.858
118866267 GT-AG 0 0.0197425466989605 3197 rna-XM_035002173.1 21930894 5 14313 17509 Mirounga leonina 9715 CAG|GTAACCCCCC...CTTTTCTTAATC/CTTTTCTTAATC...TACAG|GGA 2 1 41.48
118866268 GT-AG 0 1.5485381288257893e-05 264 rna-XM_035002173.1 21930894 1 4170 4433 Mirounga leonina 9715 CTG|GTGTGTTTGG...GTGGTTTCATCA/TGTGGTTTCATC...TTCAG|TTT   0 19.212
118866269 GT-AG 0 0.00213062621853 8293 rna-XM_035002173.1 21930894 2 4558 12850 Mirounga leonina 9715 TGG|GTAAGCTGGG...GTCTCCTTGACT/CCTTGACTGATT...CCCAG|CAG   0 27.631
118866270 GT-AG 0 1.000000099473604e-05 181 rna-XM_035002173.1 21930894 3 12897 13077 Mirounga leonina 9715 GAG|GTGAGTAACT...TCACATTTGACC/TCACATTTGACC...CCCAG|GGG   0 30.754

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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]);