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 = 19533891

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
104744717 GT-AG 0 1.1873581406808809e-05 345 rna-XM_009948760.1 19533891 1 885 1229 Leptosomus discolor 188344 CAG|GTATTGCACA...CCAGCCCTAGTA/GCCCTAGTAAAA...TTCAG|TGG 1 1 16.841
104744718 GT-AG 0 1.000000099473604e-05 6275 rna-XM_009948760.1 19533891 2 1409 7683 Leptosomus discolor 188344 CAG|GTACGAGCAC...ATCCTTTTGTCT/GCTAGCTTCACA...GACAG|GGA 0 1 32.461
104744719 GT-AG 0 5.6668576914297496e-05 1200 rna-XM_009948760.1 19533891 3 7798 8997 Leptosomus discolor 188344 GAG|GTACCAGACC...CCCGTTTTATCG/TCTTGTTTCACC...TTCAG|GCC 0 1 42.408
104744720 GT-AG 0 1.000000099473604e-05 414 rna-XM_009948760.1 19533891 4 9130 9543 Leptosomus discolor 188344 GAG|GTAAAACTAG...TTTCTCTTGATG/CAGTGTCTTATT...TACAG|GTG 0 1 53.927
104744721 GT-AG 0 1.000000099473604e-05 126 rna-XM_009948760.1 19533891 5 9748 9873 Leptosomus discolor 188344 GCA|GTGAGTCAAA...TGTGCTTTGTCT/CTTTGTCTAACA...TACAG|GCC 0 1 71.728
104744722 GT-AG 0 6.713503212940306e-05 942 rna-XM_009948760.1 19533891 6 9954 10895 Leptosomus discolor 188344 GTT|GTAAGTAACT...CTGGCCTAAACT/GCTGGCCTAAAC...AACAG|CCA 2 1 78.709
104744723 GT-AG 0 0.0028136771981127 694 rna-XM_009948760.1 19533891 7 10981 11674 Leptosomus discolor 188344 CAT|GTATGCGCAC...TTTCTTTTAAGC/TTTCTTTTAAGC...ATTAG|GAA 0 1 86.126
104744724 GT-AG 0 1.000000099473604e-05 581 rna-XM_009948760.1 19533891 8 11771 12351 Leptosomus discolor 188344 CAG|GTGAGTGAAG...TTTTTCTTTTCT/ATCCTATTTAAG...TTCAG|AGT 0 1 94.503

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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]);