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 = 11013776

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Suggested facets: dinucleotide_pair, score, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
60946796 GT-AG 0 1.000000099473604e-05 981 rna-XM_028537358.1 11013776 2 3015495 3016475 Dendronephthya gigantea 151771 AAG|GTATGGGGTG...TTGATTTTTATC/TTGATTTTTATC...CGCAG|CGG 1 1 16.504
60946797 GT-AG 0 1.000000099473604e-05 338 rna-XM_028537358.1 11013776 3 3014359 3014696 Dendronephthya gigantea 151771 CAG|GTAAAATAAT...GTTTCGTTAAGA/GAGTATTTAAAC...TTTAG|GAC 1 1 32.429
60946798 GT-AG 0 1.000000099473604e-05 121 rna-XM_028537358.1 11013776 4 3012594 3012714 Dendronephthya gigantea 151771 CTG|GTAGGTTGAA...GTATATTTGAAA/GTATATTTGAAA...TCCAG|GAC 1 1 65.236
60946799 GC-AG 0 1.000000099473604e-05 479 rna-XM_028537358.1 11013776 5 3011254 3011732 Dendronephthya gigantea 151771 AAG|GCTAGTATCA...ATTTTCTTTCTA/CTTATATTCATG...TATAG|GCA 1 1 82.419
60946800 GT-AG 0 0.0001715197089692 363 rna-XM_028537358.1 11013776 6 3010432 3010794 Dendronephthya gigantea 151771 CAG|GTACGTTTGT...TCTTTTTTCTTT/CTAAAACTAAAC...AATAG|ATT 1 1 91.579
60946801 GT-AG 0 1.000000099473604e-05 446 rna-XM_028537358.1 11013776 7 3009746 3010191 Dendronephthya gigantea 151771 AAG|GTGAACAACA...AGGTTTTTAGAA/GAGGTTTTTAGA...TTTAG|ATC 1 1 96.368
60953270 GT-AG 0 1.9088370597400357e-05 3826 rna-XM_028537358.1 11013776 1 3016560 3020385 Dendronephthya gigantea 151771 AAG|GTAAGCAATG...TTTTCCTTTACT/TTTTCCTTTACT...TACAG|TGA   0 15.286

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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]);