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 = 15198778

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
82239081 GC-AG 0 1.000000099473604e-05 3809 rna-XM_031055583.1 15198778 1 8560676 8564484 Geospiza fortis 48883 CAG|GCAAGTATGG...GCTTTCATAGCA/CAAAAGGTAATT...CTCAG|AAT 1 1 12.511
82239082 GA-TT 0 1.000000099473604e-05 484 rna-XM_031055583.1 15198778 4 8565254 8565737 Geospiza fortis 48883 GAA|GAAAGGACAA...AAGTATTTAACT/AAGTATTTAACT...TTTTT|TAA 2 1 47.109
82239083 GT-AG 0 1.000000099473604e-05 646 rna-XM_031055583.1 15198778 5 8566072 8566717 Geospiza fortis 48883 AAG|GTGAGTAACT...GCTTCCTTTCCC/AATACTCTAACC...ATCAG|GAA 0 1 62.195
82239084 GT-AG 0 1.000000099473604e-05 845 rna-XM_031055583.1 15198778 6 8566895 8567739 Geospiza fortis 48883 AAG|GTGAGCTTGA...AATTTCTTTCTA/TGCAAGCTGATT...TTTAG|ATT 0 1 70.19
82239085 GT-AT 0 8.466169421039241e-05 969 rna-XM_031055583.1 15198778 7 8567799 8568767 Geospiza fortis 48883 TAG|GTGACCCAGC...AATTTTTTAAAA/AATTTTTTAAAA...ATTAT|ATG 2 1 72.855
82239086 GT-AG 0 0.0003245197439075 3589 rna-XM_031055583.1 15198778 8 8569024 8572612 Geospiza fortis 48883 AAG|GTGCACTTCT...CTTTCCTCAACA/TCTTTCCTCAAC...AAAAG|CAT 0 1 84.417
82239087 GT-AG 0 1.000000099473604e-05 560 rna-XM_031055583.1 15198778 9 8572671 8573230 Geospiza fortis 48883 CAG|GTAAGAAAAC...TTATTCTTACTT/TTTATTCTTACT...TTCAG|AGG 1 1 87.037

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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]);