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 = 26834568

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
148958085 GT-AG 0 0.0084198509599419 182 rna-XM_027360133.1 26834568 2 483087 483268 Penaeus vannamei 6689 AAT|GTAACTAGTT...TTTTTTTTAGAA/TTTTTTTTTAGA...TTTAG|CAG 0 1 27.778
148958086 GT-AG 0 0.0002621913828427 2934 rna-XM_027360133.1 26834568 3 483452 486385 Penaeus vannamei 6689 TCA|GTAAGTCTCT...GTTTCCTGAATT/AGTTTCCTGAAT...TCCAG|GTA 0 1 44.722
148958087 GT-AG 0 1.000000099473604e-05 1836 rna-XM_027360133.1 26834568 4 486538 488373 Penaeus vannamei 6689 AAA|GTGAGTGCTT...TTCTTGTTATTA/TATGTATTCATT...TTCAG|TAA 2 1 58.796
148958088 GT-AG 0 1.000000099473604e-05 145 rna-XM_027360133.1 26834568 5 488515 488659 Penaeus vannamei 6689 TCG|GTGAGTTCAT...ATTCTATTAATC/ATTCTATTAATC...TGCAG|ATT 2 1 71.852
148958089 GT-AG 0 1.000000099473604e-05 214 rna-XM_027360133.1 26834568 6 488756 488969 Penaeus vannamei 6689 ATG|GTAAGGTTAA...TATTTTTTTACG/TATTTTTTTACG...TTCAG|TTT 2 1 80.741
148958090 GT-AG 0 0.0266390494279274 153 rna-XM_027360133.1 26834568 7 489124 489276 Penaeus vannamei 6689 AAG|GTATTTTTTT...TTGGCGTTAATA/ATTGTAGTGATA...TTCAG|GCT 0 1 95.0
148958119 GT-AG 0 1.000000099473604e-05 1137 rna-XM_027360133.1 26834568 1 481731 482867 Penaeus vannamei 6689 AAG|GTAAGTTGAG...GTTGCTCTAATA/GTTGCTCTAATA...TATAG|GGT   0 9.444

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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]);