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 = 27699029

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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
153875897 GT-AG 0 1.000000099473604e-05 69 rna-XM_009516153.1 27699029 1 2325502 2325570 Phytophthora sojae 67593 AGA|GTGGCACGAG...GAAGCCGCAACG/GAGCATTGCATC...CTTAG|GTT 1 1 14.078
153875898 GT-AG 0 0.0003850442959568 69 rna-XM_009516153.1 27699029 2 2326164 2326232 Phytophthora sojae 67593 AGT|GTGTTCTACG...AGGGGCTTATGG/CAGGGGCTTATG...TGCAG|GAA 0 1 21.152
153875899 GT-AG 0 1.000000099473604e-05 78 rna-XM_009516153.1 27699029 3 2326336 2326413 Phytophthora sojae 67593 TAA|GTAAGGCGTT...ACTGACTTGATG/TTTGTGCTGACA...TTTAG|TTG 1 1 22.381
153875900 GT-AG 0 1.000000099473604e-05 72 rna-XM_009516153.1 27699029 4 2327891 2327962 Phytophthora sojae 67593 CAC|GTACGATGAC...GTGCGCTCGAAG/CGGAGAGTGAGC...GACAG|TAA 2 1 40.002
153875901 GT-AG 0 1.000000099473604e-05 77 rna-XM_009516153.1 27699029 5 2330307 2330383 Phytophthora sojae 67593 CAG|GTACGGTATT...GAGTACTTATGC/TTGCTGCTGACC...GACAG|GCG 0 1 67.967
153875902 GT-AG 0 0.00092079978288 72 rna-XM_009516153.1 27699029 6 2330486 2330557 Phytophthora sojae 67593 TAC|GTAAGTATCG...GTTCTCTTGACA/AACTAACTGACC...ACCAG|ACG 0 1 69.184
153875903 GT-AG 0 0.0006458870919866 36 rna-XM_009516153.1 27699029 7 2331003 2331038 Phytophthora sojae 67593 AGC|GTACCAAGAG...CGGTCTTCAGAG/TCGGTCTTCAGA...GCAAG|GGG 1 1 74.493
153875904 GT-AG 0 1.000000099473604e-05 51 rna-XM_009516153.1 27699029 8 2331271 2331321 Phytophthora sojae 67593 TTC|GTCGCGCCGG...GCCCCGTTCTCC/TCTGCAGGCAAC...CCAAG|GGC 2 1 77.261

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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]);