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 = 30057397

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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
168294059 GT-AG 0 1.000000099473604e-05 597 rna-XM_007419900.2 30057397 1 573465 574061 Python bivittatus 176946 AAA|GTAAGTATCT...CAGGTTTCAACA/TCAGGTTTCAAC...CCCAG|AAA 0 1 8.36
168294060 GT-AG 0 1.000000099473604e-05 5035 rna-XM_007419900.2 30057397 2 574173 579207 Python bivittatus 176946 AAG|GTGAGTGGGC...ATATTTTGGAAA/TTGGAAATCATA...TACAG|GGA 0 1 20.257
168294061 GT-AG 0 1.000000099473604e-05 1007 rna-XM_007419900.2 30057397 3 579349 580355 Python bivittatus 176946 ATT|GTAGGAGAAG...CTTTCTTTATAT/CCTTTCTTTATA...ACAAG|ACA 0 1 35.37
168294062 GT-AG 0 1.000000099473604e-05 715 rna-XM_007419900.2 30057397 4 580464 581178 Python bivittatus 176946 GAA|GTAAGACCAT...CTCTTTTTAGCC/AGAAGACTAATT...CTTAG|TTC 0 1 46.945
168294063 GT-AG 0 1.000000099473604e-05 264 rna-XM_007419900.2 30057397 5 581278 581541 Python bivittatus 176946 CGC|GTAAGATACT...CTGTTTTTTGCT/TGGAAGGAGACT...GACAG|TTG 0 1 57.556
168294064 GT-AG 0 1.000000099473604e-05 1021 rna-XM_007419900.2 30057397 6 581641 582661 Python bivittatus 176946 AAG|GTGAGCTGAG...TTATCCTTTTCT/TTGTTTTTTACA...CTCAG|CTT 0 1 68.167
168294065 GT-AG 0 1.000000099473604e-05 864 rna-XM_007419900.2 30057397 7 582761 583624 Python bivittatus 176946 CGT|GTAAGAGATA...TTGGCATTATAT/ATTGGCATTATA...TGCAG|GAA 0 1 78.778
168294066 GT-AG 0 1.000000099473604e-05 236 rna-XM_007419900.2 30057397 8 583724 583959 Python bivittatus 176946 CTG|GTAAGTGCTG...ACGTCCTTATTT/AACGTCCTTATT...TACAG|GCT 0 1 89.389

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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]);