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 = 32241349

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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
180024486 GT-AG 0 0.0006127033428358 28274 rna-XM_012939328.2 32241349 1 1307227 1335500 Schistosoma haematobium 6185 ACA|GTAAGTTACT...ACCTCTTTGACC/TTCTTTCTGAAT...TACAG|CCA 0 1 7.219
180024487 GT-AG 0 1.000000099473604e-05 4220 rna-XM_012939328.2 32241349 2 1302979 1307198 Schistosoma haematobium 6185 TAG|GTAAGTTAGT...ACTCTTTTATTT/CTTTTATTTATA...ATTAG|AAA 1 1 9.715
180024488 GT-AG 0 0.0001116866702058 10906 rna-XM_012939328.2 32241349 3 1291697 1302602 Schistosoma haematobium 6185 TTT|GTAAGTCATT...CCAATCTTAATC/CTTATATTCATG...TTTAG|TCC 2 1 43.226
180024489 GT-AG 0 5.266050231216519e-05 5467 rna-XM_012939328.2 32241349 4 1286090 1291556 Schistosoma haematobium 6185 AAT|GTAAGTTATT...CTTTTCTTTTCT/CTGTTTTTCATC...TTCAG|CTG 1 1 55.704
180024490 GT-AG 0 9.149577775774471e-05 4633 rna-XM_012939328.2 32241349 5 1281301 1285933 Schistosoma haematobium 6185 ATG|GTAAGCTTGA...AAATGCTTAAAA/ATAAGTTTAATT...TTTAG|GAG 1 1 69.608
180024491 GT-AG 0 1.000000099473604e-05 1811 rna-XM_012939328.2 32241349 6 1279317 1281127 Schistosoma haematobium 6185 CAG|GTAATGAATA...TTTTCCTTCTTT/CCCTTTCTGATA...CTTAG|TTT 0 1 85.027

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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]);