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)

7 rows where transcript_id = 37986724

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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
209726832 GT-AG 0 11.114829472348807 93 rna-XM_047293981.1 37986724 1 19419 19511 Vigna umbellata 87088 ATC|GTATCTCTCT...TTTTTTTTGCCG/GAATTTCTCACC...CACAG|TCG 0 1 11.218
209726833 GT-AG 0 0.0007527591397613 101 rna-XM_047293981.1 37986724 2 19163 19263 Vigna umbellata 87088 CAT|GTAAACCTTC...TGGTTCATGATT/GTTCAATTCATT...TTCAG|GTA 2 1 27.778
209726834 GT-AG 0 1.000000099473604e-05 677 rna-XM_047293981.1 37986724 3 18311 18987 Vigna umbellata 87088 AAG|GTTATTTAAT...TGTATTTTATCT/CTGTTTCTAATG...TACAG|GGG 0 1 46.474
209726835 GT-AG 0 7.53401597063273e-05 107 rna-XM_047293981.1 37986724 4 18132 18238 Vigna umbellata 87088 GAG|GTATAACTGT...TCAGTCATGATA/TATATGTTCAGT...ACCAG|GTA 0 1 54.167
209726836 GT-AG 0 0.0029114097225356 381 rna-XM_047293981.1 37986724 5 17634 18014 Vigna umbellata 87088 CAG|GTATAGTTTC...TATTTCTTATAT/TTATTTCTTATA...GGTAG|GAA 0 1 66.667
209726837 GT-AG 0 1.000000099473604e-05 398 rna-XM_047293981.1 37986724 6 17155 17552 Vigna umbellata 87088 AAG|GTGGTTTTGC...TTATTGTTGATG/CATTTATTTATT...GGCAG|GCT 0 1 75.321
209726838 GC-AG 0 1.343733948151175e-05 1096 rna-XM_047293981.1 37986724 7 15982 17077 Vigna umbellata 87088 CAG|GCAAGCTTTT...TATTTTTTAGCT/TTTTATTTTATT...ATCAG|CTT 2 1 83.547

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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]);