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 = 24003244

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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
130619904 GT-AG 0 1.000000099473604e-05 21149 rna-XM_026036322.1 24003244 1 2228006 2249154 Nothoprocta perdicaria 30464 AAG|GTTAGCACTG...TATTTCCTACTA/CTATTTCCTACT...TGTAG|TTA 1 1 0.374
130619905 GT-AG 0 1.007041208583675e-05 1384 rna-XM_026036322.1 24003244 2 2226461 2227844 Nothoprocta perdicaria 30464 AAC|GTAAGATATC...ATATTCTTACTG/TATATTCTTACT...ACTAG|GCT 0 1 2.004
130619906 GT-AG 0 1.3166116731706978e-05 9303 rna-XM_026036322.1 24003244 3 2217032 2226334 Nothoprocta perdicaria 30464 CAG|GTAACAACAA...TTATTTTTATTT/ATTATTTTTATT...TTCAG|GAG 0 1 3.279
130619907 GT-AG 0 0.0001753328487429 303 rna-XM_026036322.1 24003244 4 2216621 2216923 Nothoprocta perdicaria 30464 GAG|GTAACTGAGT...AAACTCTTACTG/AAAACTCTTACT...AGCAG|GTT 0 1 4.372
130619908 GT-AG 0 1.000000099473604e-05 557 rna-XM_026036322.1 24003244 5 2215991 2216547 Nothoprocta perdicaria 30464 CAG|GTAAGTAGTA...TTATTCTTTCTA/AAAAGTATTATT...TGCAG|TAG 1 1 5.11
130619909 GT-AG 0 2.6950176736957945e-05 725 rna-XM_026036322.1 24003244 6 2215132 2215856 Nothoprocta perdicaria 30464 AAG|GTCTGTGCTT...ATATTCTTAAAA/TATATTCTTAAA...TAAAG|ATT 0 1 6.466
130619910 GT-AG 0 1.000000099473604e-05 186 rna-XM_026036322.1 24003244 7 2209831 2210016 Nothoprocta perdicaria 30464 AAT|GTAAGAGCAG...AATTTCTGAAGT/CAATTTCTGAAG...AAAAG|CAT 0 1 58.227
130619911 GT-AG 0 1.000000099473604e-05 2567 rna-XM_026036322.1 24003244 8 2203231 2205797 Nothoprocta perdicaria 30464 GTG|GTAAATAAGC...AGATTTTTAATA/AGATTTTTAATA...TCTAG|AAA 1 1 99.039

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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]);