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 = 35515681

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
199619965 GT-AG 0 1.000000099473604e-05 330 rna-XM_010226816.1 35515681 2 92207 92536 Tinamus guttatus 94827 CAT|GTGAGAAATA...TTTCCCTTTCTC/CCCTTTCTCATT...TACAG|CTG 1 1 27.186
199619966 GT-AG 0 1.000000099473604e-05 759 rna-XM_010226816.1 35515681 3 92642 93400 Tinamus guttatus 94827 GAG|GTGAGGATGC...TCCCCTTTTGTT/ACAGTAATCATT...CTTAG|GTC 1 1 41.53
199619967 GT-AG 0 1.000000099473604e-05 275 rna-XM_010226816.1 35515681 4 93474 93748 Tinamus guttatus 94827 CCA|GTGAGTATCT...CTTGCTTTGACC/CTTGCTTTGACC...CTCAG|GGA 2 1 51.503
199619968 GT-AG 0 4.167186293964082e-05 210 rna-XM_010226816.1 35515681 5 93891 94100 Tinamus guttatus 94827 GAG|GTATTGAGTC...CAGCCTATGACT/CAGCCTATGACT...TTCAG|AAA 0 1 70.902
199619969 GT-AG 0 1.000000099473604e-05 376 rna-XM_010226816.1 35515681 6 94176 94551 Tinamus guttatus 94827 CTG|GTACGTACAA...TAACTTTTACTC/CTTTTACTCACA...TACAG|GAA 0 1 81.148
199619975 GT-AG 0 1.000000099473604e-05 396 rna-XM_010226816.1 35515681 1 91672 92067 Tinamus guttatus 94827 CAG|GTGGGACACG...TTCTCTGCAATT/TTACGGTTAAGA...TTCAG|ATG   0 8.197

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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]);