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)

7 rows where transcript_id = 36995252

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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
204419662 GT-AG 0 1.000000099473604e-05 79 rna-XM_038851842.1 36995252 1 10398103 10398181 Tripterygium wilfordii 458696 AAG|GTGAGAATAA...TTCCCCTTATCA/ATGTGATTGATT...TGTAG|ATA 0 1 49.784
204419663 GT-AG 0 1.7872480701374531 321 rna-XM_038851842.1 36995252 2 10398332 10398652 Tripterygium wilfordii 458696 CAG|GTATCCATCT...TTCAATTTGACT/TTCAATTTGACT...TGCAG|GCA 0 1 55.195
204419664 GT-AG 0 1.000000099473604e-05 77 rna-XM_038851842.1 36995252 3 10398924 10399000 Tripterygium wilfordii 458696 AAG|GTCCTAAAGT...AAAATCTCAACC/TAATTGGTAATT...CTTAG|GTG 1 1 64.971
204419665 GT-AG 0 1.000000099473604e-05 92 rna-XM_038851842.1 36995252 4 10399112 10399203 Tripterygium wilfordii 458696 AGG|GTAAGTTTCT...TGATTCTCATTG/ATGATTCTCATT...TGTAG|CAA 1 1 68.975
204419666 GT-AG 0 1.1966479051883164e-05 75 rna-XM_038851842.1 36995252 5 10399379 10399453 Tripterygium wilfordii 458696 CTG|GTAGGTTGTG...CATCTATTGATG/TCGGCATTTATT...TTCAG|GTA 2 1 75.289
204419667 GT-AG 0 1.000000099473604e-05 79 rna-XM_038851842.1 36995252 6 10399727 10399805 Tripterygium wilfordii 458696 AGG|GTAATTACAA...TTTTTCATACCA/TTTTTTTTCATA...TGCAG|ATT 2 1 85.137
204419668 GT-AG 0 1.000000099473604e-05 93 rna-XM_038851842.1 36995252 7 10400001 10400093 Tripterygium wilfordii 458696 AAG|GTAAAGAGGA...ATTTCCTTCTCC/ATTGTTCTGAGT...TGCAG|GTG 2 1 92.172

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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]);