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)

9 rows where transcript_id = 15550540

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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
84004679 GT-AG 0 1.000000099473604e-05 302 rna-XM_028353009.1 15550540 1 49554828 49555129 Glycine soja 3848 CAG|GTTCTATTAA...TTTTGCTTACAT/CTTTTGCTTACA...TGAAG|ATT 0 1 29.47
84004680 GT-AG 0 1.000000099473604e-05 106 rna-XM_028353009.1 15550540 2 49555346 49555451 Glycine soja 3848 AAG|GTTTGGTTAA...ATGTTGTTAATT/ATTTTGCTCACA...GGCAG|AGT 0 1 36.542
84004681 GT-AG 0 1.000000099473604e-05 903 rna-XM_028353009.1 15550540 3 49555563 49556465 Glycine soja 3848 GAG|GTGAGGAATG...GAATTCTGATTA/GGAATTCTGATT...TGCAG|GAC 0 1 40.177
84004682 GT-AG 0 1.000000099473604e-05 96 rna-XM_028353009.1 15550540 4 49556664 49556759 Glycine soja 3848 CAG|GTAATTGAAA...CATTCATTGATA/CATACATTCATT...TGCAG|ACC 0 1 46.66
84004683 GT-AG 0 0.0145176651501184 102 rna-XM_028353009.1 15550540 5 49556892 49556993 Glycine soja 3848 GCT|GTATGTTATT...TGTTACTGAATG/ATGTTACTGAAT...TGTAG|GCC 0 1 50.982
84004684 GT-AG 0 0.008411162133471 113 rna-XM_028353009.1 15550540 6 49557051 49557163 Glycine soja 3848 CAA|GTACTTTATA...ATAACTTTAACT/TAAGTACTGATT...TGCAG|GTC 0 1 52.849
84004685 GT-AG 0 0.0036448449504109 1080 rna-XM_028353009.1 15550540 7 49557281 49558360 Glycine soja 3848 AAG|GTATTTATTA...TTTGCTTTCACA/TTTGCTTTCACA...TGAAG|GCT 0 1 56.68
84004686 GT-AG 0 0.0009913120993469 934 rna-XM_028353009.1 15550540 8 49558439 49559372 Glycine soja 3848 GAG|GTATATGCTG...ATGTCTTTATTG/CATGTCTTTATT...TGCAG|TGC 0 1 59.234
84004687 GT-AG 0 1.000000099473604e-05 1318 rna-XM_028353009.1 15550540 9 49559517 49560834 Glycine soja 3848 GAG|GTTATTGCTA...AGAGTATTGACA/AGAGTATTGACA...TGCAG|GTT 0 1 63.949

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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]);