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 = 8206014

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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
43959032 GT-AG 0 1.000000099473604e-05 10837 rna-gnl|WGS:WEIW|CHLHAR_R12968_mrna 8206014 1 2835926 2846762 Chloropsis hardwickii 667144 AAG|GTGAGGAGCG...GCTTTTTTGCTT/GACAAACTCACA...TTTAG|GCT 0 1 11.003
43959033 GT-AG 0 0.0014882465673546 510 rna-gnl|WGS:WEIW|CHLHAR_R12968_mrna 8206014 2 2835206 2835715 Chloropsis hardwickii 667144 AAG|GTAACTTTTC...TAAACTTTTCTG/GAGTTGCTCATC...TTCAG|GTC 0 1 33.657
43959034 GT-AG 0 0.0131386272757903 177 rna-gnl|WGS:WEIW|CHLHAR_R12968_mrna 8206014 3 2834855 2835031 Chloropsis hardwickii 667144 CAG|GTATGTTGAC...TGTTTCTTAACT/TGTTTCTTAACT...TGCAG|ATT 0 1 52.427
43959035 GT-AG 0 1.000000099473604e-05 304 rna-gnl|WGS:WEIW|CHLHAR_R12968_mrna 8206014 4 2834461 2834764 Chloropsis hardwickii 667144 GAG|GTACTGAAAA...TTTTTTTTACTC/TTTTTTTTTACT...TACAG|GGT 0 1 62.136
43959036 GT-AG 0 1.000000099473604e-05 742 rna-gnl|WGS:WEIW|CHLHAR_R12968_mrna 8206014 5 2833557 2834298 Chloropsis hardwickii 667144 GAG|GTGAGCAGGA...GGTACCTGAACT/CTTGTCATAATT...TCTAG|GGG 0 1 79.612
43959037 GT-AG 0 1.000000099473604e-05 732 rna-gnl|WGS:WEIW|CHLHAR_R12968_mrna 8206014 6 2832706 2833437 Chloropsis hardwickii 667144 CTT|GTAAGTATGT...TTTGCACTGATG/TTTGCACTGATG...TTCAG|TTT 2 1 92.449

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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]);