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 = 2014031

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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
10831832 GT-AG 0 1.000000099473604e-05 32537 rna-XM_013173749.1 2014031 1 13817382 13849918 Anser cygnoides 8845 TTG|GTAAGTGTCC...TTTTCCTTTTTC/ATTTTTCTGACA...TCCAG|GTG 1 1 3.45
10831833 GT-AG 0 1.000000099473604e-05 33914 rna-XM_013173749.1 2014031 2 13783237 13817150 Anser cygnoides 8845 TTG|GTAAGTCACT...TCTCCATTAATT/AATGTACTCAAA...TTCAG|CGC 1 1 10.763
10831834 GT-AG 0 1.000000099473604e-05 6466 rna-XM_013173749.1 2014031 3 13776658 13783123 Anser cygnoides 8845 AAG|GTAAATCACT...TTTTTCTTTTTT/CCAGATCTGATA...CCCAG|GTA 0 1 14.34
10831835 GT-AG 0 4.080012041973278e-05 2293 rna-XM_013173749.1 2014031 4 13774160 13776452 Anser cygnoides 8845 AGA|GTAAGTATCC...CAATGCTTATCT/TAAATACTTATT...AACAG|TTA 1 1 20.829
10831836 GT-AG 0 1.3704654013522868e-05 7642 rna-XM_013173749.1 2014031 5 13766465 13774106 Anser cygnoides 8845 ACA|GTAAGTGTTT...GAATCTGTAAAG/AAATTTTCCATT...TACAG|ATA 0 1 22.507
10831837 GT-AG 0 1.000000099473604e-05 11522 rna-XM_013173749.1 2014031 6 13754845 13766366 Anser cygnoides 8845 AAG|GTAAGATAAC...TGTTCCTTAATC/TTGTTCCTTAAT...CCTAG|ATT 2 1 25.609
10831838 GT-AG 0 1.000000099473604e-05 3766 rna-XM_013173749.1 2014031 7 13750880 13754645 Anser cygnoides 8845 GAG|GTTGGTTGCT...GCATTCTTATTA/AGCATTCTTATT...ATTAG|GTT 0 1 31.909

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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]);