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 = 8980489

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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
48347979 GT-AG 0 1.000000099473604e-05 2154 rna-XM_010209811.1 8980489 1 17220 19373 Colius striatus 57412 ATG|GTAAGGAGGC...GTTTTCTTCCTT/ATCTAAGTCACT...TGCAG|TCT 0 1 20.408
48347980 GT-AG 0 1.000000099473604e-05 418 rna-XM_010209811.1 8980489 2 19620 20037 Colius striatus 57412 CAG|GTGAGTCTTA...GCTTTTTTAACC/GCTTTTTTAACC...TTCAG|GTT 0 1 48.299
48347981 GT-AG 0 1.000000099473604e-05 725 rna-XM_010209811.1 8980489 3 20151 20875 Colius striatus 57412 AGC|GTAAGTTAAT...TGCTTTTCAAAT/TTGCTTTTCAAA...TGCAG|GGG 2 1 61.111
48347982 GT-AG 0 1.000000099473604e-05 1228 rna-XM_010209811.1 8980489 4 20959 22186 Colius striatus 57412 GTG|GTAAGACCAA...CTCTTCTGATCT/ATGATACTCACA...TACAG|AAA 1 1 70.522
48347983 GT-AG 0 0.0002800932488089 86 rna-XM_010209811.1 8980489 5 22214 22299 Colius striatus 57412 TAG|GTACGTATCA...TGAGTCTTAACA/TCTTTCCTCATT...TTTAG|ATT 1 1 73.583
48347984 GC-AG 0 0.0001983955019781 69 rna-XM_010209811.1 8980489 6 22370 22438 Colius striatus 57412 CAG|GCCTCCCATG...CCAGCCTCAGCC/CCCAGCCTCAGC...CCCAG|GCC 2 1 81.519

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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]);