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 = 13349286

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
71011038 GT-AG 0 9.364447181722518e-05 41 mRNA_1227 13349286 1 104228149 104228189 Entomophaga maimaiga 42810 GAG|GTAGATTTTT...GGGTAATTAATT/GGGTAATTAATT...ATCAG|AAA 0 1 5.657
71011039 GT-AG 0 3.8134250622189313e-05 37 mRNA_1227 13349286 2 104230399 104230435 Entomophaga maimaiga 42810 TAC|GTAAGTATAT...ATTTCTCTAACT/ATTTCTCTAACT...GCTAG|TTG 1 1 72.841
71011040 GT-AG 0 1.1829581189754157 33 mRNA_1227 13349286 3 104230540 104230572 Entomophaga maimaiga 42810 AAA|GTATCATTTT...TTTTTATCAACG/TCAACGCTAATC...CTTAG|TCC 0 1 76.004
71011041 GT-AG 0 1.000000099473604e-05 39 mRNA_1227 13349286 4 104230678 104230716 Entomophaga maimaiga 42810 AAG|GTATGGAATC...ATCTCAGTATAG/TAGTTGCCGACC...TTTAG|CCG 0 1 79.197
71011042 GT-AG 0 0.0009101111561011 32 mRNA_1227 13349286 5 104230885 104230916 Entomophaga maimaiga 42810 AAG|GTATTTTGCT...CTCCTCTTCTAA/TCCTCTTCTAAC...TTTAG|GTC 0 1 84.307
71011043 GT-AG 0 1.5904708837118717e-05 35 mRNA_1227 13349286 6 104231037 104231071 Entomophaga maimaiga 42810 GGA|GTAAGTTGAC...CAGGCTCTAATT/CAGGCTCTAATT...TTCAG|GCT 0 1 87.956
71011044 GT-AG 0 1.000000099473604e-05 34 mRNA_1227 13349286 7 104231249 104231282 Entomophaga maimaiga 42810 GAG|GTAATGATAG...AACATATTAATT/AACATATTAATT...TTTAG|TCC 0 1 93.339
71011045 GT-AG 0 1.000000099473604e-05 37 mRNA_1227 13349286 8 104231370 104231406 Entomophaga maimaiga 42810 GGA|GTAAAAATAA...AAAATCTAAACC/AAAAATCTAAAC...TTAAG|ATT 0 1 95.985

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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]);