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 = 37928549

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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
209469483 GT-AG 0 0.5569686173466293 990 rna-XM_017583651.1 37928549 1 5068449 5069438 Vigna angularis 3914 TGA|GTATGTTTTC...CCTTTTTTATTT/TTTTTATTTATT...TGTAG|TTT 2 1 3.864
209469484 GT-AG 0 0.0052826596997148 1239 rna-XM_017583651.1 37928549 2 5069603 5070841 Vigna angularis 3914 CTG|GTATGGTTAT...TAGTCCTTAATA/GTAGTCCTTAAT...TTCAG|GTT 1 1 7.953
209469485 GT-AG 0 1.0372569824263832e-05 769 rna-XM_017583651.1 37928549 3 5070966 5071734 Vigna angularis 3914 TAA|GTAAGTTAAA...TGTGCTGTACTG/TACTGGCTAATG...ATCAG|ATT 2 1 11.045
209469486 GT-AG 0 2.021735219416302e-05 124 rna-XM_017583651.1 37928549 4 5071868 5071991 Vigna angularis 3914 AAG|GTACTATAAT...TGGTGCTTAACA/TTGGTGCTTAAC...GACAG|AAG 0 1 14.361
209469487 GT-AG 0 5.583701268274613e-05 100 rna-XM_017583651.1 37928549 5 5072057 5072156 Vigna angularis 3914 CAG|GTATTATATA...CAACACTTACAT/TAGTTATTCATT...CCCAG|AAT 2 1 15.981
209469488 GT-AG 0 7.684451701404648e-05 90 rna-XM_017583651.1 37928549 6 5075254 5075343 Vigna angularis 3914 AAG|GTAACATTTT...GGAATCTAACAG/TGGAATCTAACA...TTCAG|CAT 0 1 93.194
209469489 GT-AG 0 0.0034072455948517 273 rna-XM_017583651.1 37928549 7 5075458 5075730 Vigna angularis 3914 AAA|GTATGTAATC...TTGTTGTTAACT/TTGTTGTTAACT...TTCAG|GCC 0 1 96.036
209469490 GT-AG 0 9.58378113531648e-05 76 rna-XM_017583651.1 37928549 8 5075839 5075914 Vigna angularis 3914 CAG|GTATTTGTCC...CGCATCTGATCA/TATTATGTAATT...TTCAG|GTT 0 1 98.728

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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]);