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 = 17327614

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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
92592732 GT-AG 0 0.0045560399769437 47 rna-XM_020571739.1 17327614 1 1696650 1696696 Heterostelium album 2086695 ATA|GTATAGTTGG...GATTCCGTGGCG/AAAAGTGTTATT...TCAAG|ATC 1 1 6.203
92592733 GT-AG 0 1.000000099473604e-05 505 rna-XM_020571739.1 17327614 2 1696060 1696564 Heterostelium album 2086695 CAG|GTCTGTTCCT...TTAGCATTGGCG/ACAGTAATAATA...AATAG|TGT 2 1 7.286
92592734 GT-AG 0 1.000000099473604e-05 76 rna-XM_020571739.1 17327614 3 1695692 1695767 Heterostelium album 2086695 GAT|GTAAGTAGAT...AATTTCATAATT/TAATTTCTAATT...ATCAG|CTT 0 1 11.005
92592735 GT-AG 0 3.162299375392794e-05 66 rna-XM_020571739.1 17327614 4 1689623 1689688 Heterostelium album 2086695 ATG|GTAATTATAA...TTTATTTTAATA/ATTTTTCTAATA...AATAG|CAT 0 1 87.467
92592736 GT-AG 0 0.0126411189262211 70 rna-XM_020571739.1 17327614 5 1689358 1689427 Heterostelium album 2086695 AGA|GTATGTATTA...AACTTTTTATAA/CTTTTTATAATT...ATTAG|GCA 0 1 89.95
92592737 GT-AG 0 1.000000099473604e-05 77 rna-XM_020571739.1 17327614 6 1689111 1689187 Heterostelium album 2086695 TGG|GTAAGTGAAT...TAATTTTTAAAA/GTTTATTTTATA...TATAG|TGT 2 1 92.116

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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]);