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 = 23897207

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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
129806541 GT-AG 0 1.000000099473604e-05 22515 rna-XM_026672329.1 23897207 1 16739756 16762270 Notechis scutatus 8663 TGG|GTGAGGGACC...TCTTTCTTTAAT/TCTTTCTTTAAT...TTTAG|GAT 1 1 1.783
129806542 GT-AG 0 0.0003572067742308 413 rna-XM_026672329.1 23897207 2 16762337 16762749 Notechis scutatus 8663 AAG|GTATTATATA...GCATCTTTATAG/TTTCTTCTTATT...CACAG|ACT 1 1 2.997
129806543 GT-AG 0 7.689806478487715e-05 6463 rna-XM_026672329.1 23897207 3 16762830 16769292 Notechis scutatus 8663 AAG|GTAACAATGC...TTGTTTTTATTC/TTTGTTTTTATT...CACAG|GAA 0 1 4.468
129806544 GT-AG 0 1.000000099473604e-05 4634 rna-XM_026672329.1 23897207 4 16769423 16774056 Notechis scutatus 8663 AAG|GTTGGACTTA...TTTTTCTGAGTA/TAGCTTTTCATT...TTTAG|GTA 1 1 6.858
129806545 GT-AG 0 0.0002401272173739 5163 rna-XM_026672329.1 23897207 5 16774345 16779507 Notechis scutatus 8663 AAG|GTATGTATGC...CATTCCTTCCCA/GGTTTTCTCATT...TGCAG|ACG 1 1 12.153
129806546 GT-AG 0 1.000000099473604e-05 25522 rna-XM_026672329.1 23897207 6 16779602 16805123 Notechis scutatus 8663 TGG|GTAAGAGAAA...TCTCCCTTTTTC/CTATTTCTCTCT...TTTAG|TGA 2 1 13.881

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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]);