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 = 19438218

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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
104136807 GT-AG 0 1.000000099473604e-05 17621 rna-XM_006625987.2 19438218 1 32478401 32496021 Lepisosteus oculatus 7918 AAG|GTGAGTTGAG...TATTCTTTCTCC/GGTATTTTCACA...TTCAG|ACG 1 1 0.215
104136808 GT-AG 0 1.000000099473604e-05 23723 rna-XM_006625987.2 19438218 2 32454113 32477835 Lepisosteus oculatus 7918 GAG|GTGAGTCGGT...ATGTTTTTAAAT/ATGTTTTTAAAT...TCCAG|CCC 2 1 12.358
104136809 GT-AG 0 1.000000099473604e-05 2515 rna-XM_006625987.2 19438218 3 32451568 32454082 Lepisosteus oculatus 7918 AAG|GTAAGTCCTG...GGGGTTTTGATC/ATGTTGTTCATT...TGTAG|TTA 2 1 13.002
104136810 GT-AG 0 1.000000099473604e-05 954 rna-XM_006625987.2 19438218 4 32450490 32451443 Lepisosteus oculatus 7918 TTG|GTGAGTTGTA...CCTGTCTTAATT/CCTGTCTTAATT...TGCAG|GGT 0 1 15.667
104136811 GT-AG 0 1.268746931948858e-05 2255 rna-XM_006625987.2 19438218 5 32448107 32450361 Lepisosteus oculatus 7918 AAG|GTAATTTGTG...TGTCTCTGAATA/CTGTCTCTGAAT...TGTAG|TCA 2 1 18.418
104136812 GT-AG 0 1.000000099473604e-05 652 rna-XM_006625987.2 19438218 6 32447357 32448008 Lepisosteus oculatus 7918 CTG|GTAGGTAAAT...GACAACTTAAAA/AGACAACTTAAA...AACAG|GTG 1 1 20.524
104136813 GT-AG 0 0.0004515335899416 2459 rna-XM_006625987.2 19438218 7 32444800 32447258 Lepisosteus oculatus 7918 CGA|GTAAGTTAAC...TAGTTCTTAACT/TAGTTCTTAACT...CACAG|GTT 0 1 22.631

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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]);