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 = 17265347

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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
92255781 GT-AG 0 2.0101423369733405e-05 106 rna-XM_021424514.1 17265347 1 10564232 10564337 Herrania umbratica 108875 CAT|GTAAAGTACA...AAATTTTTAATC/AAATTTTTAATC...TACAG|GGT 1 1 5.294
92255782 GT-AG 0 5.3955008129279775e-05 115 rna-XM_021424514.1 17265347 2 10564745 10564859 Herrania umbratica 108875 AAG|GTTGCTGGTA...TGTGCCTTATTT/TATTTACTTATT...TACAG|GGA 0 1 17.821
92255783 GT-AG 0 0.0005335265814395 484 rna-XM_021424514.1 17265347 3 10565259 10565742 Herrania umbratica 108875 GAG|GTATGATTTT...ATCTCTTTCTCT/CTGTCTCTCACA...TGTAG|CTA 0 1 30.102
92255784 GT-AG 0 1.0514343901932964e-05 615 rna-XM_021424514.1 17265347 4 10567091 10567705 Herrania umbratica 108875 CTG|GTAAGTGCTT...TGTTCCTTAAAT/ACAAGTTTTATT...GGCAG|ACA 1 1 71.591
92255785 GT-AG 0 0.0004784682530464 1193 rna-XM_021424514.1 17265347 5 10567798 10568990 Herrania umbratica 108875 AAG|GTTTGTTTTA...CCCCCTTTGATA/TTTTTACTTACT...TGCAG|AGG 0 1 74.423
92255786 GT-AG 0 0.000154458341979 1009 rna-XM_021424514.1 17265347 6 10569133 10570141 Herrania umbratica 108875 AAG|GTAACATCTT...AAAATCATAACT/AAAATCATAACT...GATAG|GAA 1 1 78.793

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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]);