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 = 7208778

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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
37777069 GT-AG 0 1.000000099473604e-05 1841 rna-gnl|WGS:VZRE|CEPORN_R11740_mrna 7208778 1 78230 80070 Cephalopterus ornatus 114276 TGG|GTAAGAATGA...TTTCTTTGGACT/TTTCTGTTCATG...TACAG|GTT 1 1 22.192
37777070 GT-AG 0 0.0003465967515504 2346 rna-gnl|WGS:VZRE|CEPORN_R11740_mrna 7208778 2 75771 78116 Cephalopterus ornatus 114276 TAT|GTAAGCTGCT...TTGGTCTTCCCA/CTATATATAAAA...CGCAG|GCA 0 1 32.345
37777071 GT-AG 0 1.000000099473604e-05 356 rna-gnl|WGS:VZRE|CEPORN_R11740_mrna 7208778 3 75201 75556 Cephalopterus ornatus 114276 TAG|GTAAGTCCAA...ATGCTTTTATTT/AATGCTTTTATT...GACAG|AGA 1 1 51.572
37777072 GT-AG 0 0.0005947823536218 2344 rna-gnl|WGS:VZRE|CEPORN_R11740_mrna 7208778 4 72746 75089 Cephalopterus ornatus 114276 AAG|GTAGGCTTTA...TTTTCCTCACAC/GTTTTCCTCACA...ATCAG|ATT 1 1 61.545
37777073 GT-AG 0 0.0003385732738626 1206 rna-gnl|WGS:VZRE|CEPORN_R11740_mrna 7208778 5 71446 72651 Cephalopterus ornatus 114276 AAG|GTAACACTCC...TAGTTTTTAATT/TAGTTTTTAATT...TCTAG|ACT 2 1 69.991
37777074 GT-AG 0 1.000000099473604e-05 1179 rna-gnl|WGS:VZRE|CEPORN_R11740_mrna 7208778 6 70128 71306 Cephalopterus ornatus 114276 CAG|GTCAGACACT...ACAACTGTATCC/GGCACACTAACA...TGCAG|GTG 0 1 82.48

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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]);