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 = 27699092

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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
153876164 GT-AG 0 1.000000099473604e-05 69 rna-XM_009517489.1 27699092 1 6566710 6566778 Phytophthora sojae 67593 AAG|GTACGAACTT...TATATTTTCGCT/TTTTCGCTCACA...TACAG|ATC 2 1 31.76
153876165 GT-AG 0 1.000000099473604e-05 198 rna-XM_009517489.1 27699092 2 6567318 6567515 Phytophthora sojae 67593 GAC|GTGTAACTCC...TTAAGCATATTG/ATGTTGCTAAAG...GCAAG|GTC 1 1 43.706
153876166 GT-AG 0 1.000000099473604e-05 61 rna-XM_009517489.1 27699092 3 6569222 6569282 Phytophthora sojae 67593 CTG|GTAAGGTTTC...CCGGTCATATAT/TCGATGCTGACA...TGTAG|ATT 0 1 81.516
153876167 GT-AG 0 2.3333786662974892e-05 78 rna-XM_009517489.1 27699092 4 6569565 6569642 Phytophthora sojae 67593 CAT|GTACGTGCCT...GACAACTTATCG/ACCATGCTGACA...CACAG|TAC 0 1 87.766
153876168 GT-AG 0 5.802401893985481e-05 61 rna-XM_009517489.1 27699092 5 6569803 6569863 Phytophthora sojae 67593 TCG|GTACATAAAC...CTTCTATTGACC/CTTCTATTGACC...CGTAG|AGT 1 1 91.312
153876169 GT-AG 0 4.9956613355904296e-05 92 rna-XM_009517489.1 27699092 6 6569950 6570041 Phytophthora sojae 67593 ATT|GTACGTGATA...GACTTCTTCTCG/ATTTGTCTGACA...TGCAG|GTC 0 1 93.218

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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]);