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 = 21313960

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Suggested facets: dinucleotide_pair, 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
114848500 GT-AG 0 1.869186651791105e-05 3593 MESCA006936-RA 21313960 2 20431 24023 Megaselia scalaris 36166 AGC|GTAAGTTGAA...TTAATATTATCT/TTGTAACTAACT...TTTAG|AAC 1 1 17.077
114848501 GT-AG 0 2.7762033740898784e-05 58 MESCA006936-RA 21313960 3 20127 20184 Megaselia scalaris 36166 GAA|GTAAGTTGAA...TTGGTTTTGAAT/TTGGTTTTGAAT...TTTAG|AAA 1 1 33.88
114848502 GT-AG 0 0.0008441226647586 44 MESCA006936-RA 21313960 4 19853 19896 Megaselia scalaris 36166 GTT|GTAAATAACT...TATTCTTTAATA/TATTCTTTAATA...TCAAG|CCT 0 1 49.59
114848503 GT-AG 0 0.0019595551245138 3054 MESCA006936-RA 21313960 5 16769 19822 Megaselia scalaris 36166 AGG|GTATGTTTGA...TTACCATCAATA/TCAATATTCAAA...TTCAG|ATC 0 1 51.639
114848506 GT-AG 0 1.000000099473604e-05 15038 MESCA006936-RA 21313960 1 24236 39273 Megaselia scalaris 36166 ATT|GTAAGTAAAC...TTAAACTTGACT/TGCATACTAATT...TTCAG|GTA   0 3.689
114848507 GC-CG 0 0.0152621340192858 53 MESCA006936-RA 21313960 6 16110 16162 Megaselia scalaris 36166 CCT|GCAAACATCA...TTAGTCTTAAAA/TTTAGTCTTAAA...TACCG|ATT   0 93.033

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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]);