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)

5 rows where transcript_id = 3611909

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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
18021998 GT-AG 0 1.000000099473604e-05 302 rna-XM_020406688.1 3611909 1 100708489 100708790 Asparagus officinalis 4686 GGG|GTAAGAATCT...GATTTTCTGACT/GATTTTCTGACT...TGCAG|TTG 1 1 2.714
18021999 GT-AG 0 1.000000099473604e-05 86 rna-XM_020406688.1 3611909 2 100711008 100711093 Asparagus officinalis 4686 CAG|GTTTGTCATG...TGATTCTTGTTG/ATCTGGTTCATG...TTCAG|GTG 1 1 61.133
18022000 GT-AG 0 0.000779068120558 79 rna-XM_020406688.1 3611909 3 100711289 100711367 Asparagus officinalis 4686 AAG|GTAACATTTT...ATTGCTTTAAGA/TCCTGTTTCATA...TTCAG|GGT 1 1 66.271
18022001 GT-AG 0 0.0050073067677783 79 rna-XM_020406688.1 3611909 4 100711743 100711821 Asparagus officinalis 4686 CAG|GTATATATCC...TCCATTTTGACT/TTTTGACTAATA...ACCAG|GCG 1 1 76.153
18022002 GT-AG 0 0.1695276099865226 76 rna-XM_020406688.1 3611909 5 100711978 100712053 Asparagus officinalis 4686 TAG|GTATACCTCG...AGTTTCTTGACC/TTGTATTTAATA...TGCAG|GTT 1 1 80.264

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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]);