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 = 17327625

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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
92592807 GT-AG 0 1.000000099473604e-05 89 rna-XM_020571518.1 17327625 1 1100582 1100670 Heterostelium album 2086695 AAG|GTAAGTTGTT...TTACTTTTATTA/ATTACTTTTATT...TGTAG|AAA 0 1 10.042
92592808 GT-AG 0 1.000000099473604e-05 87 rna-XM_020571518.1 17327625 2 1098953 1099039 Heterostelium album 2086695 AAG|GTAAACACAC...TTTTTTTTCACT/TTTTTTTTCACT...TTTAG|ATC 0 1 37.209
92592809 GT-AG 0 0.0007447380024138 411 rna-XM_020571518.1 17327625 3 1097949 1098359 Heterostelium album 2086695 GAT|GTATTTCGAA...CAAGCTGTACTA/ACTATCCACATA...TACAG|TGA 2 1 47.657
92592810 GT-AG 0 6.100516620904163e-05 92 rna-XM_020571518.1 17327625 4 1096218 1096309 Heterostelium album 2086695 GAA|GTAAGTTACT...CTTGTTTTATTT/TCTTGTTTTATT...TATAG|TTA 0 1 76.533
92592811 GT-AG 0 2.693338767998175e-05 70 rna-XM_020571518.1 17327625 5 1095745 1095814 Heterostelium album 2086695 ACA|GTAAGTCATT...TTAATATTAACT/TTAATATTAACT...TGCAG|AAT 1 1 83.633
92592812 GT-AG 0 2.0286467124847065e-05 77 rna-XM_020571518.1 17327625 6 1095255 1095331 Heterostelium album 2086695 AAG|GTAAAATTCA...TAATTCTTATTC/CTAATTCTTATT...AATAG|ACA 0 1 90.909

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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]);