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)

6 rows where transcript_id = 21550680

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
116463036 TC-AG 0 14.51737673603023 52 rna-XM_021663109.1 21550680 2 4502530 4502581 Meriones unguiculatus 10047 TCT|TCCTCCTCCT...GGCCTCTCAGCA/TGGCCTCTCAGC...CTCAG|TGC 1 1 40.488
116463037 GT-AG 0 1.000000099473604e-05 88 rna-XM_021663109.1 21550680 3 4502363 4502450 Meriones unguiculatus 10047 GAG|GTAAGCGGAA...GCCTCTTTGTCT/GCTCTGCTGACA...TCAAG|GGA 2 1 47.138
116463038 GT-AG 0 1.000000099473604e-05 3083 rna-XM_021663109.1 21550680 4 4499192 4502274 Meriones unguiculatus 10047 TGA|GTGGCAGCTG...CCTCCCTCAGCA/TGCAGGCTCACC...TGAAG|AAT 0 1 54.545
116463039 GT-AG 0 1.000000099473604e-05 1509 rna-XM_021663109.1 21550680 5 4497553 4499061 Meriones unguiculatus 10047 CAG|GTGAGCTGGC...TGCTCTCTCTCT/GGCAAACTCACT...TCTAG|TCC 1 1 65.488
116463040 GT-AG 0 1.000000099473604e-05 115 rna-XM_021663109.1 21550680 6 4497275 4497389 Meriones unguiculatus 10047 AGT|GTGAGCCTCT...TAGGTCTGAAGC/CTGAAGCTCAGG...ATCAG|GTC 2 1 79.209
116463041 GT-AG 0 1.000000099473604e-05 334 rna-XM_021663109.1 21550680 7 4496802 4497135 Meriones unguiculatus 10047 CAG|GTGGGCACAT...GCATCCTTCTCA/GGGCCCCTCAGC...TCTAG|GAG 0 1 90.909

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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]);