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)

8 rows where transcript_id = 13705603

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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
72997649 GT-AG 0 1.000000099473604e-05 16469 rna-XM_016190711.1 13705603 1 11976668 11993136 Erinaceus europaeus 9365 CAG|GTGAGGGGAT...TTCTCTCTAAGG/TTCTCTCTAAGG...CTCAG|GCT 1 1 3.004
72997650 GT-AG 0 1.000000099473604e-05 2685 rna-XM_016190711.1 13705603 2 11973861 11976545 Erinaceus europaeus 9365 CAG|GTGAGTGTGT...GTCTTTATGATT/GTCTTTATGATT...CCCAG|GTG 0 1 14.826
72997651 GT-AG 0 1.000000099473604e-05 21846 rna-XM_016190711.1 13705603 3 11951915 11973760 Erinaceus europaeus 9365 CAG|GTGGGTGACT...CTGTACTTGTCA/GTACTTGTCACT...CACAG|TTG 1 1 24.516
72997652 GT-AG 0 1.000000099473604e-05 5199 rna-XM_016190711.1 13705603 4 11946630 11951828 Erinaceus europaeus 9365 AAG|GTGAGGCCTA...TCTTCCTTTTCT/TCGGGTCTCACG...CCAAG|GTT 0 1 32.849
72997653 GT-AG 0 1.000000099473604e-05 8198 rna-XM_016190711.1 13705603 5 11938254 11946451 Erinaceus europaeus 9365 AAG|GTGATGAGGC...TGCCCCTTGCTT/TAGGTGCCCAGG...TGCAG|GCA 1 1 50.097
72997654 GT-AG 0 0.0011859461115012 1609 rna-XM_016190711.1 13705603 6 11936462 11938070 Erinaceus europaeus 9365 AAG|GTAACCCCTC...CAGGCCTCACTC/TCAGGCCTCACT...TCCAG|TCT 1 1 67.829
72997655 GT-AG 0 1.000000099473604e-05 4711 rna-XM_016190711.1 13705603 7 11931619 11936329 Erinaceus europaeus 9365 ACC|GTGAGTGGGG...CCTTCCTTCCCT/TACTTGCTCATC...CCCAG|GAA 1 1 80.62
72997656 GT-AG 0 1.000000099473604e-05 1625 rna-XM_016190711.1 13705603 8 11929902 11931526 Erinaceus europaeus 9365 AAG|GTACAGTCCA...GGTTCCTTTCTG/CCCCCCCTCACT...TCCAG|GGG 0 1 89.535

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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]);