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 = 27699040

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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
153875962 GT-AG 0 1.000000099473604e-05 76 rna-XM_009519217.1 27699040 1 11887064 11887139 Phytophthora sojae 67593 GAG|GTACGACGTC...TATGAATTAATG/TATGAATTAATG...TTTAG|CGG 2 1 1.595
153875963 GT-AG 0 1.000000099473604e-05 141 rna-XM_009519217.1 27699040 2 11887228 11887368 Phytophthora sojae 67593 TCG|GTTAAGCTGG...ACATCGTTGAGA/AGTGTGCTCACA...TCGAG|CCG 0 1 2.838
153875964 GT-AG 0 1.142000983188365e-05 63 rna-XM_009519217.1 27699040 3 11888065 11888127 Phytophthora sojae 67593 GAA|GTCGACCCTA...GGCGGCTTGAAG/AAGACATTCAAA...TTGAG|GCA 0 1 12.664
153875965 GT-AG 0 0.0009990957151012 276 rna-XM_009519217.1 27699040 4 11889274 11889549 Phytophthora sojae 67593 CGT|GTAGATTCTC...ATCAACTTGAAA/ATCAACTTGAAA...CGCAG|AAG 0 1 28.844
153875966 GT-AG 0 1.000000099473604e-05 111 rna-XM_009519217.1 27699040 5 11889659 11889769 Phytophthora sojae 67593 TGC|GTGAATACGA...GGCTTCTCACCG/GGGCTTCTCACC...AGAAG|ACT 1 1 30.383
153875967 GT-AG 0 1.000000099473604e-05 60 rna-XM_009519217.1 27699040 6 11891032 11891091 Phytophthora sojae 67593 ATG|GTTCACGAAT...AGATTCTGAACG/CAGATTCTGAAC...AAGAG|ATT 0 1 48.2
153875968 GT-AG 0 1.000000099473604e-05 42 rna-XM_009519217.1 27699040 7 11892862 11892903 Phytophthora sojae 67593 TTC|GTGAATAATT...TCTCTAGCAACG/ACGATGGAGACT...ATCAG|TGG 0 1 73.189

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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]);