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 = 11121926

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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
61577813 GT-AG 0 5.3586022245860907e-05 66 rna-XM_047055307.1 11121926 1 3456755 3456820 Dermatophagoides farinae 6954 CCG|GTAAATTTAT...CAATTCTAATCG/CCAATTCTAATC...TCCAG|TTT 1 1 1.471
61577814 GT-AG 0 3.558815060171948e-05 73 rna-XM_047055307.1 11121926 2 3456591 3456663 Dermatophagoides farinae 6954 AAA|GTAAATCGGA...TTATTTTTATTT/TTTTTATTTATT...AATAG|AAA 2 1 2.851
61577815 GT-AG 0 1.000000099473604e-05 84 rna-XM_047055307.1 11121926 3 3454436 3454519 Dermatophagoides farinae 6954 GAG|GTTCGTAATG...TTATTCTTATTT/ATTATTCTTATT...TACAG|ATT 0 1 34.258
61577816 GT-AG 0 0.2135548566893587 69 rna-XM_047055307.1 11121926 4 3454220 3454288 Dermatophagoides farinae 6954 AAT|GTATGTATTG...TCCTCCTTGATA/TATATTCTCAAC...TTTAG|TTA 0 1 36.488
61577817 GT-AG 0 0.0002447632428457 66 rna-XM_047055307.1 11121926 5 3453988 3454053 Dermatophagoides farinae 6954 CAA|GTAATTTATG...TTCATTTTAATT/TTAATTTTGATT...ATTAG|GTT 1 1 39.005
61577818 GT-AG 0 0.0002098020595187 52 rna-XM_047055307.1 11121926 6 3453748 3453799 Dermatophagoides farinae 6954 TAA|GTGTAATTTT...AAAACTTTGAAT/TTTGAATTCATT...AATAG|GAA 0 1 41.856

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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]);