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 = 20745252

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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
111172178 GT-AG 0 0.000235510168542 542 rna-XM_044643704.1 20745252 1 19922937 19923478 Mangifera indica 29780 GAG|GTTTGCTGAT...CTTATATTAATT/CTTATATTAATT...TGTAG|ATC 0 1 5.006
111172179 GT-AG 0 1.000000099473604e-05 95 rna-XM_044643704.1 20745252 2 19923689 19923783 Mangifera indica 29780 AGT|GTAAGATATT...TTATTGTTATTT/TATTTTTTCAAT...TGTAG|ATT 0 1 10.845
111172180 GT-AG 0 0.0213364603669954 303 rna-XM_044643704.1 20745252 3 19924038 19924340 Mangifera indica 29780 TGA|GTATGTGTTT...TTTGTTTTACCA/TATTTATTTATT...TTTAG|TTG 2 1 17.909
111172181 GT-AG 0 1.000000099473604e-05 118 rna-XM_044643704.1 20745252 4 19924612 19924729 Mangifera indica 29780 GAG|GTTCATACTA...ATTCTTTTATTA/GATTCTTTTATT...TACAG|GCC 0 1 25.445
111172182 GT-AG 0 9.714763588732588e-05 150 rna-XM_044643704.1 20745252 5 19924814 19924963 Mangifera indica 29780 TCT|GTGAGTTTTC...TTTTTTTTGACA/TTTTTTTTGACA...TGCAG|GAT 0 1 27.781
111172183 GT-AG 0 1.000000099473604e-05 110 rna-XM_044643704.1 20745252 6 19926805 19926914 Mangifera indica 29780 CCA|GTAAAAATCT...AAACATTTGATG/CTTTGTATTACA...GTCAG|TGT 2 1 78.977
111172184 GT-AG 0 1.000000099473604e-05 1124 rna-XM_044643704.1 20745252 7 19927183 19928306 Mangifera indica 29780 CAG|GTAAGAAAGA...TTCTTTTTATTG/TTTCTTTTTATT...TGTAG|TTT 0 1 86.429

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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]);