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 = 38189476

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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
210820865 GT-AG 0 0.0002708795256644 2120 rna-XM_026008359.1 38189476 1 12338814 12340933 Vulpes vulpes 9627 TGG|GTATGGGCTA...TTATCCTTATCA/ATTATCCTTATC...CTCAG|GGA 1 1 2.496
210820866 GT-AG 0 1.000000099473604e-05 668 rna-XM_026008359.1 38189476 2 12338053 12338720 Vulpes vulpes 9627 AAA|GTGAGTTGTG...GCCCCCCTGACC/GCCCCCCTGACC...CTCAG|GTC 1 1 5.135
210820867 GT-AG 0 1.000000099473604e-05 1146 rna-XM_026008359.1 38189476 3 12336637 12337782 Vulpes vulpes 9627 CAG|GTGAGCCGGA...ATCTACTGATCC/CATCTACTGATC...TGCAG|GGT 1 1 12.794
210820868 GT-AG 0 1.000000099473604e-05 390 rna-XM_026008359.1 38189476 4 12336067 12336456 Vulpes vulpes 9627 CAG|GTACTACAAC...GGCCCCTTCTTC/GCCCTCCTGATG...CACAG|CCT 1 1 17.901
210820869 GT-AG 0 1.000000099473604e-05 781 rna-XM_026008359.1 38189476 5 12334971 12335751 Vulpes vulpes 9627 CAG|GTACGGTTCT...CGTTTCTTGTGT/ACAATCTGCACA...CCCAG|AAA 1 1 26.837
210820870 GT-AG 0 1.000000099473604e-05 691 rna-XM_026008359.1 38189476 6 12334171 12334861 Vulpes vulpes 9627 CTG|GTGAGTGTCC...GCCTCTGTATTC/CGTCCCCTCAGG...TTCAG|GTA 2 1 29.929
210820871 GT-AG 0 1.7110623381573135e-05 3010 rna-XM_026008359.1 38189476 7 12331003 12334012 Vulpes vulpes 9627 TAG|GTAAGCAGCC...TTACTTTTAATA/TTAATATTCACA...CATAG|CCG 1 1 34.411

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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]);