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 = 21796676

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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
117999786 GT-AG 0 1.000000099473604e-05 1627 rna-XM_026780300.1 21796676 2 108046486 108048112 Microtus ochrogaster 79684 AGG|GTGTGTGGGC...TGTACTTTACTC/TTGTACTTTACT...TGCAG|GTA 2 1 4.452
117999787 GT-AG 0 1.000000099473604e-05 2043 rna-XM_026780300.1 21796676 3 108044313 108046355 Microtus ochrogaster 79684 CAG|GTGAGAGGGG...GTTCCTTTGACA/CATGTCTTTATT...TGTAG|GTC 0 1 6.087
117999788 GT-AG 0 0.2373365797889825 3969 rna-XM_026780300.1 21796676 4 108039953 108043921 Microtus ochrogaster 79684 CAG|GTATCGTTAC...GATGCCTCAACT/AATAATTTAAAT...TCTAG|ATG 1 1 11.005
117999789 GT-AG 0 0.0002023242885854 1812 rna-XM_026780300.1 21796676 5 108033875 108035686 Microtus ochrogaster 79684 CAG|GTATTTGTAG...TATTTCTTTCCT/TTGATGCTGATA...ATTAG|GAC 1 1 64.659
117999790 GT-AG 0 1.773006961409521e-05 4573 rna-XM_026780300.1 21796676 6 108028401 108032973 Microtus ochrogaster 79684 TAG|GTAAGCCTCT...TGTACTTTCACA/TGTACTTTCACA...CTTAG|AAT 2 1 75.99
118006189 GT-AG 0 0.0018138640687859 2469 rna-XM_026780300.1 21796676 1 108048308 108050776 Microtus ochrogaster 79684 CAG|GTATCGCCAA...TTTTCTGTGATG/ACTGTCCTCATG...TTCAG|GAT   0 2.012

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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]);