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 = 34091267

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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
190849670 GT-AG 0 0.0055572951253641 55 rna-XM_013241746.1 34091267 3 3164189 3164243 Stomoxys calcitrans 35570 CCG|GTATGTTAAA...TTTTTCTTATAG/TTTTTTCTTATA...TTCAG|TTG 0 1 40.718
190849671 GT-AG 0 0.0001719831334389 2950 rna-XM_013241746.1 34091267 4 3161143 3164092 Stomoxys calcitrans 35570 GAG|GTAAGTTTCT...TCTTTTTTAATT/TCTTTTTTAATT...TTTAG|ATT 0 1 45.311
190849672 GT-AG 0 1.299229857078249e-05 69 rna-XM_013241746.1 34091267 5 3160664 3160732 Stomoxys calcitrans 35570 AAA|GTAAGTCTCG...CATGCGTTAATG/TATATGCTAATT...TTCAG|AGT 2 1 64.928
190849673 GT-AG 0 0.0052383303111318 60 rna-XM_013241746.1 34091267 6 3160187 3160246 Stomoxys calcitrans 35570 AAA|GTATGTTACA...TTGAGCTTATTG/ATTGAGCTTATT...TGCAG|ACT 2 1 84.88
190849790 GT-AG 0 1.000000099473604e-05 9931 rna-XM_013241746.1 34091267 1 3180696 3190626 Stomoxys calcitrans 35570 AAA|GTAAAAAACA...ACATTTTTCATC/ACATTTTTCATC...TGCAG|TTG   0 10.191
190849791 GT-AG 0 1.000000099473604e-05 15792 rna-XM_013241746.1 34091267 2 3164680 3180471 Stomoxys calcitrans 35570 TTT|GTGAGTATAT...GTAGCATTAATT/TTATTTCTAATA...TGCAG|TTA   0 20.909

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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]);