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 = 2107388

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
11507845 GT-AG 0 0.0007779180375539 1285 rna-XM_009871136.1 2107388 1 29788 31072 Apaloderma vittatum 57397 CTG|GTGTGCTTAC...CTGTTTTTATTT/GCTGTTTTTATT...TACAG|GAT 2 1 3.055
11507846 GT-AG 0 1.000000099473604e-05 4737 rna-XM_009871136.1 2107388 2 24941 29677 Apaloderma vittatum 57397 ATC|GTGAGTAGAT...TTTAGCTTAATT/TTTAGCTTAATT...CTTAG|AGC 1 1 15.981
11507847 GT-AG 0 1.000000099473604e-05 3211 rna-XM_009871136.1 2107388 3 21526 24736 Apaloderma vittatum 57397 GCT|GTGAGTTTAC...GCTGTTTTCCAT/CTGTTTTCCATC...TTTAG|CAT 1 1 39.953
11507848 GT-AG 0 1.000000099473604e-05 2434 rna-XM_009871136.1 2107388 4 19015 21448 Apaloderma vittatum 57397 AGA|GTGAGTAATC...ATTACTTTAAAT/CATATTATTACT...TTCAG|CTT 0 1 49.001
11507849 GT-AG 0 0.0002514964756573 5942 rna-XM_009871136.1 2107388 5 12993 18934 Apaloderma vittatum 57397 AGA|GTAAGTTAAG...TTGTCTTTAATT/CATTTTCTAATT...AACAG|GAT 2 1 58.402
11507850 GT-AG 0 1.000000099473604e-05 5123 rna-XM_009871136.1 2107388 6 7740 12862 Apaloderma vittatum 57397 CAG|GTAAAAAAAG...ATATTTTTATTT/TATATTTTTATT...TGTAG|AGC 0 1 73.678
11507851 GT-AG 0 1.000000099473604e-05 2089 rna-XM_009871136.1 2107388 7 5501 7589 Apaloderma vittatum 57397 GAG|GTAGGTGTTC...TGCTCTTCAATT/TTGCTCTTCAAT...AAAAG|TTT 0 1 91.304

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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]);