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)

8 rows where transcript_id = 11121921

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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
61577768 GT-AG 0 1.000000099473604e-05 62 rna-XM_047058259.1 11121921 1 7964995 7965056 Dermatophagoides farinae 6954 CAG|GTCAGTTATT...TTTATTTTATTT/ATTTATTTTATT...TAAAG|ATC 1 1 2.644
61577769 GT-AG 0 9.627855213333096e-05 50 rna-XM_047058259.1 11121921 2 7962079 7962128 Dermatophagoides farinae 6954 TCT|GTAAGTGATT...TTATTTTTATCT/TTTATACTGATT...TTTAG|ATC 2 1 45.217
61577770 GT-AG 0 0.0001820525552015 58 rna-XM_047058259.1 11121921 3 7961251 7961308 Dermatophagoides farinae 6954 TAG|GTATGTGGCT...AGTTTTTTGAAT/AATGATTTCATT...TCTAG|ATA 1 1 56.655
61577771 GT-AG 0 0.000313226726188 57 rna-XM_047058259.1 11121921 6 7960797 7960853 Dermatophagoides farinae 6954 TCG|GTATGAATTC...ACATTTTTAAAA/TCAATATTAACA...TTCAG|GAA 1 1 62.493
61577772 GT-AG 0 0.0001554527004475 68 rna-XM_047058259.1 11121921 7 7959826 7959893 Dermatophagoides farinae 6954 CCG|GTACTATTCA...GTGTTATTAATT/GTGTTATTAATT...TCTAG|GCG 1 1 75.906
61577773 GT-AG 0 0.0003273579432655 61 rna-XM_047058259.1 11121921 8 7959315 7959375 Dermatophagoides farinae 6954 AAA|GTATGTGATT...ATTTTCTAATTT/AATTTTCTAATT...TTTAG|AAT 1 1 82.591
61577774 GT-AG 0 1.000000099473604e-05 65 rna-XM_047058259.1 11121921 9 7958341 7958405 Dermatophagoides farinae 6954 CTG|GTTTGTGAAA...TTTTTCTGATTT/CTTTTTCTGATT...CTTAG|GTA 1 1 96.093
61577775 GT-AG 0 1.000000099473604e-05 69 rna-XM_047058259.1 11121921 10 7958062 7958130 Dermatophagoides farinae 6954 AAG|GTAAAAACAA...TTTATTTTATTT/ATTTATTTTATT...TATAG|CTG 1 1 99.213

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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]);