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 = 30057335

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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
168293347 GT-AG 0 1.000000099473604e-05 1499 rna-XM_007419826.3 30057335 1 1443095 1444593 Python bivittatus 176946 TTG|GTAAGGGGGT...ATATTTGTAACA/ATATTTGTAACA...TCCAG|GGC 2 1 5.535
168293348 GT-AG 0 0.0024118600201081 348 rna-XM_007419826.3 30057335 2 1444669 1445016 Python bivittatus 176946 CAG|GTATTTGCTT...TTGACTTTAGCT/TCTTTTCTGACA...ACTAG|ATC 2 1 14.969
168293349 GT-AG 0 1.000000099473604e-05 86 rna-XM_007419826.3 30057335 3 1445120 1445205 Python bivittatus 176946 CAG|GTAAACACCT...TTACACTTGGCT/TATATATTTACA...TTTAG|TAT 0 1 27.925
168293350 GT-AG 0 1.000000099473604e-05 878 rna-XM_007419826.3 30057335 4 1445274 1446151 Python bivittatus 176946 AAA|GTAAGTAATT...TCTTTCTTGCCT/CTTCTCCTGATG...TCTAG|AAT 2 1 36.478
168293351 GT-AG 0 1.000000099473604e-05 119 rna-XM_007419826.3 30057335 5 1446222 1446340 Python bivittatus 176946 GAG|GTAAGGGGAC...TGTGCTTTAGGA/AAATTATACACT...CCAAG|AAG 0 1 45.283
168293352 GT-AG 0 1.000000099473604e-05 2292 rna-XM_007419826.3 30057335 6 1446413 1448704 Python bivittatus 176946 CAG|GTAAGGGCAT...TGTACTTTCATC/TGTACTTTCATC...CACAG|GAA 0 1 54.34
168293353 GT-AG 0 1.000000099473604e-05 1561 rna-XM_007419826.3 30057335 7 1448846 1450406 Python bivittatus 176946 GAG|GTAATGAATG...GTCATCTTTTCT/GTTTCTGTCATC...CACAG|GAT 0 1 72.075

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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]);