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 = 4118524

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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
21286771 GT-AG 0 0.000694105448994 45 rna-XM_006675040.1 4118524 1 377059 377103 Batrachochytrium dendrobatidis 109871 CGA|GTCTGCTTCT...GAAAACAAAGCA/AGAAAACAAAGC...TCCAG|TAC 2 1 12.199
21286772 GT-AG 0 0.008237433629474 156 rna-XM_006675040.1 4118524 2 378062 378217 Batrachochytrium dendrobatidis 109871 AAT|GTTTCTGACA...GAGGCATTATTT/CCTAGGATAATT...TTCAG|CGG 0 1 36.446
21286773 GT-AG 0 0.0004508234238581 129 rna-XM_006675040.1 4118524 3 378601 378729 Batrachochytrium dendrobatidis 109871 CTC|GTTTATTGGA...CTGTGTTTACAA/CCTGTGTTTACA...AGCAG|TAG 2 1 46.14
21286774 GT-AG 0 1.000000099473604e-05 42 rna-XM_006675040.1 4118524 4 380126 380167 Batrachochytrium dendrobatidis 109871 AAA|GTTGTCAAGG...CATGACTTGGCG/GACGACATGACT...CAGAG|CTG 0 1 81.473
21286775 GT-AG 0 1.000000099473604e-05 48 rna-XM_006675040.1 4118524 5 380331 380378 Batrachochytrium dendrobatidis 109871 ACG|GTATTACAGG...GAGCACACAATG/AAGCAGCTAATG...TCCAG|CGG 1 1 85.599
21286776 GT-AG 0 0.0002438798280842 62 rna-XM_006675040.1 4118524 6 380680 380741 Batrachochytrium dendrobatidis 109871 GTG|GTATGTACAT...ACTGTTTTATTT/TTATATCTAACT...TTTAG|TAT 2 1 93.217
21286777 GT-AG 0 0.000728274185279 63 rna-XM_006675040.1 4118524 7 380961 381023 Batrachochytrium dendrobatidis 109871 ACT|GTAAGTTTGA...CAATTTTTAGAC/TTTATACTAACT...ACCAG|TCC 2 1 98.76

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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]);