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 = 8116029

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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
43326312 GT-AG 0 1.000000099473604e-05 6700 rna-XM_010123028.1 8116029 1 28906 35605 Chlamydotis macqueenii 187382 AAG|GTAAGGGTTA...GCCGCTTGGGCT/AGGGACATCACA...TGCAG|TCA 2 1 12.789
43326313 GT-AG 0 1.000000099473604e-05 10172 rna-XM_010123028.1 8116029 2 35713 45884 Chlamydotis macqueenii 187382 GAG|GTGAGAATAA...CATTTCTAAATC/CTAAATCTCATT...TACAG|GCC 1 1 20.068
43326314 GT-AG 0 4.247674199199303e-05 3713 rna-XM_010123028.1 8116029 3 45953 49665 Chlamydotis macqueenii 187382 ATG|GTACGTAATC...TTTTCTTTGGTT/GTAACACTGACA...TGAAG|GAT 0 1 24.694
43326315 GT-AG 0 5.946244958353339e-05 3696 rna-XM_010123028.1 8116029 4 49890 53585 Chlamydotis macqueenii 187382 GAG|GTAACAGTGC...TAATTTTTGACT/TAATTTTTGACT...TCTAG|GAT 2 1 39.932
43326316 GT-AG 0 0.1722236450280802 418 rna-XM_010123028.1 8116029 5 53669 54086 Chlamydotis macqueenii 187382 GCT|GTATGTTGTA...TGTTTTTTCTTT/GCTAAAGTCACA...CTAAG|ATG 1 1 45.578
43326317 GT-AG 0 1.170090991119025e-05 792 rna-XM_010123028.1 8116029 6 54228 55019 Chlamydotis macqueenii 187382 CAG|GTATTGGCCT...GATTCTATAATT/TATTCTATGATT...CAAAG|GTT 1 1 55.17
43326318 GT-AG 0 1.000000099473604e-05 2019 rna-XM_010123028.1 8116029 7 55173 57191 Chlamydotis macqueenii 187382 TGG|GTGAGAGCAA...AAAGCCTTATGG/ATAACATTTATT...TCCAG|GGA 1 1 65.578
43326319 GT-AG 0 1.000000099473604e-05 2040 rna-XM_010123028.1 8116029 8 57389 59428 Chlamydotis macqueenii 187382 AGG|GTAAGAAAAA...TATTTCTTGTTT/CTGTTGCTAATG...CCTAG|TTC 0 1 78.98

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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]);