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 = 14698728

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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
78945929 GT-AG 0 1.000000099473604e-05 157 rna-XM_004288843.2 14698728 1 4959406 4959562 Fragaria vesca 57918 AAG|GTACGGTCAT...TTTTCCTTCTTT/CTTCTTTTCATT...AACAG|TGC 0 1 7.034
78945930 GT-AG 0 0.0002378987050603 390 rna-XM_004288843.2 14698728 2 4958961 4959350 Fragaria vesca 57918 TGG|GTAAATATTT...AGATCCTTGATT/CCTTGATTGACT...TGCAG|AAG 1 1 8.5
78945931 GT-AG 0 1.000000099473604e-05 615 rna-XM_004288843.2 14698728 3 4958167 4958781 Fragaria vesca 57918 AAG|GTATAGAACT...TTGTTTTTCATC/TTGTTTTTCATC...ATCAG|GTG 0 1 13.269
78945932 GT-AG 0 0.0050477433334139 469 rna-XM_004288843.2 14698728 4 4957240 4957708 Fragaria vesca 57918 ACT|GTATGTGCTT...TGATATTTAGCA/ATGATATTTAGC...TACAG|ATC 2 1 25.473
78945933 GT-AG 0 0.0344264502875309 109 rna-XM_004288843.2 14698728 5 4956590 4956698 Fragaria vesca 57918 AAG|GTATTATTTA...TACTTCTTAACA/TACTTCTTAACA...GACAG|ATT 0 1 39.888
78945934 GT-AG 0 0.0063225555107553 89 rna-XM_004288843.2 14698728 6 4956321 4956409 Fragaria vesca 57918 TTG|GTAACTATTG...TTTCTATTGATC/ATTGATCTGATC...ATCAG|GTG 0 1 44.684
78945935 GT-AG 0 1.2155813734412533e-05 76 rna-XM_004288843.2 14698728 7 4954943 4955018 Fragaria vesca 57918 AAT|GTAAGCAACA...TTTATTTTCATT/TTTATTTTCATT...TTCAG|GTT 0 1 79.376
78945936 GT-AG 0 0.0001314928201617 77 rna-XM_004288843.2 14698728 8 4954444 4954520 Fragaria vesca 57918 CTC|GTAAGTTTAT...AAAACTATAATT/ATGTGTTTTATG...TGCAG|AGC 2 1 90.621

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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]);