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)

8 rows where transcript_id = 30628719

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Suggested facets: score, 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
171035976 GT-AG 0 1.000000099473604e-05 2392 rna-XM_020514272.1 30628719 2 305781 308172 Rhincodon typus 259920 CAG|GTAGGGCGAC...TTTTTTTTACAT/TTTTTTTTTACA...CACAG|ATA 0 1 21.859
171035977 GT-AG 0 1.000000099473604e-05 7615 rna-XM_020514272.1 30628719 3 308273 315887 Rhincodon typus 259920 GAG|GTTGGTTTCT...TGAACTTTGAAA/TAAGACCTGATG...TATAG|GTT 1 1 34.948
171035978 GT-AG 0 84.26404856418127 5299 rna-XM_020514272.1 30628719 4 315953 321251 Rhincodon typus 259920 GTG|GTATCCTTTT...TTTTCCTGATCA/TTTTTCCTGATC...AACAG|ATA 0 1 43.455
171035979 GT-AG 0 8.307045983944249e-05 1022 rna-XM_020514272.1 30628719 5 321279 322300 Rhincodon typus 259920 CTT|GTAAGTATGT...TTTCCCTTTTCT/AACGTATTGATT...GACAG|ATT 0 1 46.99
171035980 GT-AG 0 1.000000099473604e-05 2358 rna-XM_020514272.1 30628719 6 322397 324754 Rhincodon typus 259920 AAG|GTGAGTGAAC...TTGTATTTAATA/AGTATTTTCACA...CACAG|GCT 0 1 59.555
171035981 GT-AG 0 1.5629036198735936e-05 974 rna-XM_020514272.1 30628719 7 324808 325781 Rhincodon typus 259920 TAC|GTAAGTGCAG...TTCTTTTTAACT/TTCTTTTTAACT...GGCAG|TGT 2 1 66.492
171035982 GT-AG 0 1.2180359494704006e-05 139 rna-XM_020514272.1 30628719 8 325893 326031 Rhincodon typus 259920 TCT|GTAAGTAAAT...TTTCTCTTTCCT/CTCTCTCCCACC...TCCAG|GAC 2 1 81.021
171035990 GT-AG 0 1.000000099473604e-05 7020 rna-XM_020514272.1 30628719 1 298548 305567 Rhincodon typus 259920 GAG|GTTTGATGAA...GACAGGTTGATC/GACAGGTTGATC...CGGAG|AGA   0 1.047

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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]);