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)

6 rows where transcript_id = 15733632

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Suggested facets: 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
84902679 GT-AG 0 0.0001770017124858 834 rna-XM_017758624.1 15733632 2 48863784 48864617 Gossypium arboreum 29729 TCG|GTAAGCCATG...TTCCCTTTGATT/GTCTTCCTCATA...TGCAG|TGG 2 1 9.818
84902680 GT-AG 0 0.000777570419242 77 rna-XM_017758624.1 15733632 3 48865034 48865110 Gossypium arboreum 29729 TAG|GTATATATCT...AGAACTTCAACT/CATGTGGTTACC...TCCAG|GGC 1 1 19.78
84902681 GT-AG 0 0.0278849881035775 114 rna-XM_017758624.1 15733632 4 48865219 48865332 Gossypium arboreum 29729 AAG|GTATGTTTGC...TGTTTCTTATTT/CTGTTTCTTATT...AACAG|TGG 1 1 22.366
84902682 GT-AG 0 7.457038068868126e-05 633 rna-XM_017758624.1 15733632 5 48866778 48867410 Gossypium arboreum 29729 ATG|GTATGAACTT...TCCATCTTATCT/TTCCATCTTATC...TGCAG|GAT 0 1 56.968
84914375 GT-AG 0 0.0285159185791783 1133 rna-XM_017758624.1 15733632 1 48862479 48863611 Gossypium arboreum 29729 AAG|GTATTTTTTT...TTGGTGTTATCA/GCATATCTAATT...ATTAG|TTA   0 5.963
84914376 GT-AG 0 0.0012117833769314 113 rna-XM_017758624.1 15733632 6 48869156 48869268 Gossypium arboreum 29729 CTG|GTAGCATCTC...TCTACCTGAATT/ACTTGTCTAATT...TGCAG|GCA   0 98.755

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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]);