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 = 5773996

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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
29499218 GT-AG 0 0.0275929032387353 103 rna-XM_029271723.1 5773996 1 14214621 14214723 Cajanus cajan 3821 TGG|GTAACTTTCC...TCTTTCTTTTCT/TTTTTGTTAAAC...GATAG|GCT 0 1 16.157
29499219 GT-AG 0 0.0018047919104176 1962 rna-XM_029271723.1 5773996 2 14212515 14214476 Cajanus cajan 3821 AAG|GTATATTCCT...CAATGTTTATCA/ATGTTTATCACC...TGCAG|AGA 0 1 21.397
29499220 GT-AG 0 0.0049384016542597 94 rna-XM_029271723.1 5773996 3 14212268 14212361 Cajanus cajan 3821 TTG|GTATGCAATT...GCTGCTTTATAT/TGCTGCTTTATA...TGCAG|GGA 0 1 26.965
29499221 GT-AG 0 4.9713088579313294e-05 987 rna-XM_029271723.1 5773996 4 14211164 14212150 Cajanus cajan 3821 ATG|GTAGGTATTA...TCTTTTTTATCA/TTTTTTATCATT...TTAAG|AGC 0 1 31.223
29499222 GT-AG 0 0.0089605520623302 611 rna-XM_029271723.1 5773996 5 14210472 14211082 Cajanus cajan 3821 GAG|GTATGTTTGT...TTGTTTTTATTT/TTTTTATTTACT...TGCAG|GAG 0 1 34.17
29499223 GT-AG 0 1.000000099473604e-05 1130 rna-XM_029271723.1 5773996 6 14209192 14210321 Cajanus cajan 3821 GAG|GTTATATTTT...AGTACCTTGAAA/GAAATTTTGATA...ATCAG|TTT 0 1 39.629
29499224 GT-AG 0 1.000000099473604e-05 270 rna-XM_029271723.1 5773996 7 14207410 14207679 Cajanus cajan 3821 CAG|GTACAGTAGT...TTTTTTTTGGCA/TTTGGACTCAAT...TGCAG|AGC 0 1 94.651
29499225 GT-AG 0 1.000000099473604e-05 132 rna-XM_029271723.1 5773996 8 14207227 14207358 Cajanus cajan 3821 CAG|GTGAGTTAAA...TGAACTTTATTT/TTGTATTTAATC...TGTAG|AGC 0 1 96.507

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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]);