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 = 1552251

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
8648816 GT-AG 0 5.34238064868663e-05 104 rna-gnl|WGS:MCFG|BCR32DRAFT_mRNA1397 1552251 1 544714 544817 Anaeromyces robustus 1754192 AAT|GTAAATTAAT...ATTTTATTATCT/AATAATTTTATT...TATAG|AGC 2 1 3.504
8648817 GT-AG 0 2.0571284633110335e-05 80 rna-gnl|WGS:MCFG|BCR32DRAFT_mRNA1397 1552251 2 544917 544996 Anaeromyces robustus 1754192 TAT|GTAAGTTAAT...TATTTATTAAAA/TATTTATTAAAA...TATAG|AAA 2 1 5.012
8648818 GT-AG 0 1.000000099473604e-05 114 rna-gnl|WGS:MCFG|BCR32DRAFT_mRNA1397 1552251 3 546004 546117 Anaeromyces robustus 1754192 AAG|GTAAGAATTT...TATTTATTATAT/ATCATATTTATT...AAAAG|ATC 1 1 20.353
8648819 GT-AG 0 1.000000099473604e-05 171 rna-gnl|WGS:MCFG|BCR32DRAFT_mRNA1397 1552251 4 550816 550986 Anaeromyces robustus 1754192 CAG|GTAATATAAA...ATAACATTAAAT/TATTTACTAATA...TATAG|TTA 1 1 91.926
8648820 GT-AG 0 4.201028429178412e-05 132 rna-gnl|WGS:MCFG|BCR32DRAFT_mRNA1397 1552251 5 551017 551148 Anaeromyces robustus 1754192 ATG|GTAATTTTAA...ATATTATTATTA/TATATTATTATT...TACAG|ATA 1 1 92.383
8648821 GT-AG 0 0.0013790713213877 152 rna-gnl|WGS:MCFG|BCR32DRAFT_mRNA1397 1552251 6 551397 551548 Anaeromyces robustus 1754192 GGG|GTATGTGTTA...ATTATTTTATAT/TTTATATTAATA...AAAAG|GTA 0 1 96.161

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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]);