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 = 11121891

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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
61577537 GT-AG 0 0.00023721111414 75 rna-XM_047056939.1 11121891 1 7410089 7410163 Dermatophagoides farinae 6954 GAG|GTTTGTTTCG...TCCGCATTAATT/AATGGATTTATC...ATTAG|GCA 0 1 1.905
61577538 GT-AG 0 0.0012010572743205 78 rna-XM_047056939.1 11121891 2 7415397 7415474 Dermatophagoides farinae 6954 ACG|GTATGTAAAA...ATTTTCTTACCA/AATTTTCTTACC...TTCAG|GTA 1 1 56.381
61577539 GT-AG 0 0.4550713144200798 64 rna-XM_047056939.1 11121891 3 7415672 7415735 Dermatophagoides farinae 6954 TCC|GTATGTTTAA...TATATTTTAAAG/ATTCTTTTTACG...TTTAG|ATT 0 1 58.432
61577540 GT-AG 0 0.0003268602514748 69 rna-XM_047056939.1 11121891 4 7417830 7417898 Dermatophagoides farinae 6954 ATG|GTATGTGACA...TCTCCTTTATCA/ACGATTTTTATT...ATTAG|GCA 0 1 80.231
61577541 GT-AG 0 1.000000099473604e-05 65 rna-XM_047056939.1 11121891 5 7419046 7419110 Dermatophagoides farinae 6954 CAG|GTTTGAAACG...ATTATCTCATTT/AATATTTTCATT...TACAG|GCT 1 1 92.172
61577542 GT-AG 0 0.0055953935512645 80 rna-XM_047056939.1 11121891 6 7419231 7419310 Dermatophagoides farinae 6954 AAC|GTATGTGCAT...TTTTTCTTATTT/TTTTTTCTTATT...AATAG|CTG 1 1 93.421

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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]);