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 = 32671968

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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
182502744 GT-AG 0 0.0002008880895858 27686 rna-XM_018921653.2 32671968 1 64752050 64779735 Serinus canaria 9135 TGG|GTAAGTTTCC...TGTGTTTTAATA/TGTGTTTTAATA...TGCAG|ACA 1 1 0.494
182502745 GT-AG 0 1.000000099473604e-05 19821 rna-XM_018921653.2 32671968 2 64732175 64751995 Serinus canaria 9135 GAG|GTAATAACAA...TTTTTCTTAATT/TTTTTCTTAATT...AACAG|AAA 1 1 1.16
182502746 GT-AG 0 1.000000099473604e-05 6211 rna-XM_018921653.2 32671968 3 64720031 64726241 Serinus canaria 9135 AAG|GTACTTAAAG...CATATCTCATTT/GCATATCTCATT...TTCAG|AGA 0 1 74.38
182502747 GC-AG 0 1.000000099473604e-05 1370 rna-XM_018921653.2 32671968 4 64718527 64719896 Serinus canaria 9135 AGG|GCAAGTATTG...ATTGCCTTACTC/GATTGCCTTACT...ACTAG|GTA 2 1 76.034
182502748 GT-AG 0 1.000000099473604e-05 2005 rna-XM_018921653.2 32671968 5 64716346 64718350 Serinus canaria 9135 AAG|GTAAGGCTAC...GACATTTTAATA/TTAATACTCACA...TTAAG|GAA 1 1 78.206
182502749 GT-AG 0 1.000000099473604e-05 10952 rna-XM_018921653.2 32671968 6 64705289 64716240 Serinus canaria 9135 TTG|GTAAGAAATT...ATTGTCTTAACT/ATTGTCTTAACT...TGCAG|GTG 1 1 79.501
182502750 GT-AG 0 1.000000099473604e-05 2831 rna-XM_018921653.2 32671968 7 64701940 64704770 Serinus canaria 9135 AAG|GTAGGAGTGT...GCCACATTAACA/GCCACATTAACA...CCCAG|AGC 0 1 85.894

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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]);