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 = 6831592

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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
35540711 GT-AG 0 1.000000099473604e-05 384 rna-XM_009708953.1 6831592 1 414 797 Cariama cristata 54380 GGG|GTAAGTCAAA...CAGTCTTTGAAC/GTGTTATTAACC...CCTAG|GGG 0 1 12.855
35540712 GT-AG 0 1.000000099473604e-05 564 rna-XM_009708953.1 6831592 2 904 1467 Cariama cristata 54380 ATG|GTAAGGGCTT...CGTTCCTTGCAT/GTTCCTTGCATT...ACTAG|GTG 1 1 30.551
35540713 GT-AG 0 3.970649034097931e-05 424 rna-XM_009708953.1 6831592 3 1576 1999 Cariama cristata 54380 ACA|GTAGGTGAAC...TATGCTTTGATT/TATGCTTTGATT...TCCAG|AAC 1 1 48.581
35540714 GT-AG 0 5.336489794586341e-05 1181 rna-XM_009708953.1 6831592 4 2095 3275 Cariama cristata 54380 GGG|GTAGGTTGAG...TTCCTTTTGATC/TTCCTTTTGATC...TTCAG|CCC 0 1 64.441
35540715 GT-AG 0 0.000432864031204 1924 rna-XM_009708953.1 6831592 5 3370 5293 Cariama cristata 54380 GTG|GTATGTCACT...GTTGCTTTTTCT/TGTCCACTAACA...TTTAG|CCA 1 1 80.134
35540716 GT-AG 0 1.000000099473604e-05 530 rna-XM_009708953.1 6831592 6 5406 5935 Cariama cristata 54380 CAG|GTGAGGCAAT...CATGTTTGGATG/ATGTGTTTCATT...GGCAG|GAA 2 1 98.831

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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]);