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)

9 rows where transcript_id = 26540894

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
146969221 GT-AG 0 1.000000099473604e-05 13629 rna-XM_039700559.1 26540894 1 10108951 10122579 Passer montanus 9160 AAG|GTGAGTGCCT...CTTTTCTTGATA/CTTTTCTTGATA...AACAG|GAA 0 1 11.232
146969222 GT-AG 0 1.000000099473604e-05 3817 rna-XM_039700559.1 26540894 2 10104980 10108796 Passer montanus 9160 AAG|GTCAGCATTA...TTCCTCTTAGAA/TCTGTTTGCACT...TACAG|TGG 1 1 17.432
146969223 GT-AG 0 1.680332708886164e-05 2270 rna-XM_039700559.1 26540894 3 10102573 10104842 Passer montanus 9160 CAT|GTAAGATATC...GTGGTCTTATTT/TCTTATTTTATC...TCTAG|AGT 0 1 22.947
146969224 GT-AG 0 1.8288070038881072e-05 5887 rna-XM_039700559.1 26540894 4 10096560 10102446 Passer montanus 9160 CAG|GTAACAATAG...TTTTTTTTGTTT/ATCTGATTTACT...TTGAG|GAA 0 1 28.019
146969225 GT-AG 0 1.000000099473604e-05 315 rna-XM_039700559.1 26540894 5 10096137 10096451 Passer montanus 9160 GAG|GTAATTATGT...TAATTCTTATGC/ATAATTCTTATG...CACAG|GTT 0 1 32.367
146969226 GT-AG 0 1.000000099473604e-05 683 rna-XM_039700559.1 26540894 6 10095387 10096069 Passer montanus 9160 CAG|GTAAGAAGTG...TCTTTTTTATTC/ATCTTTTTTATT...TGCAG|TAA 1 1 35.064
146969227 GT-AG 0 5.447180592796128e-05 1409 rna-XM_039700559.1 26540894 7 10093844 10095252 Passer montanus 9160 AAG|GTCTGTATTT...AACCTTTTAATG/CTTAGACTAATT...TGTAG|AAA 0 1 40.459
146969228 GT-AG 0 1.000000099473604e-05 879 rna-XM_039700559.1 26540894 8 10092831 10093709 Passer montanus 9160 AAG|GTAAGAAGTA...ATTTTCTTCCAT/TGGTAATTTATG...GGCAG|CTT 2 1 45.853
146969229 GT-AG 0 1.000000099473604e-05 731 rna-XM_039700559.1 26540894 9 10090772 10091502 Passer montanus 9160 CAA|GTAAAAAATC...TCTTTTTTGTTT/TGGAAGTTAATC...TGCAG|TAT 1 1 99.316

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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]);