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 = 26701907

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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
148095403 GT-AG 0 1.000000099473604e-05 1352 rna-XM_009483521.1 26701907 1 336 1687 Pelecanus crispus 36300 GCT|GTGAGTTTCA...TTTTTTTTTTTT/TGAACTGTTATG...TAAAG|GTC 0 1 18.182
148095404 GT-AG 0 0.0059863533169854 2153 rna-XM_009483521.1 26701907 2 1751 3903 Pelecanus crispus 36300 AAG|GTATGTCTTC...TTGTTCTTACTA/ATTGTTCTTACT...TTTAG|TTG 0 1 26.482
148095405 GT-AG 0 1.000000099473604e-05 529 rna-XM_009483521.1 26701907 3 4006 4534 Pelecanus crispus 36300 GAG|GTAGTGGACA...TTGTCCTTTTTC/TCCGAGCTAATC...TGAAG|GTC 0 1 39.921
148095406 GT-AG 0 0.109185032173565 2330 rna-XM_009483521.1 26701907 4 4719 7048 Pelecanus crispus 36300 ATG|GTATGCTATG...TTTGTTTTAAAC/TTTGTTTTAAAC...CTTAG|CTG 1 1 64.163
148095407 GT-AG 0 1.000000099473604e-05 858 rna-XM_009483521.1 26701907 5 7171 8028 Pelecanus crispus 36300 GGG|GTAAGACGTT...TATGTTTTTGTA/TTTTGTATAAAT...TACAG|GCA 0 1 80.237
148095408 GT-AG 0 1.000000099473604e-05 643 rna-XM_009483521.1 26701907 6 8114 8756 Pelecanus crispus 36300 TGG|GTAAGAACAA...GTGACTTTAATT/GTGACTTTAATT...TTCAG|GGA 1 1 91.436

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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]);