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 = 27105615

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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
150886626 GT-AG 0 1.000000099473604e-05 8738 rna-XM_010288021.1 27105615 1 36445 45182 Phaethon lepturus 97097 AAG|GTAAGGAAAG...TTTCCTTTCGCA/ATAATAATGACA...TTCAG|GGA 2 1 10.348
150886627 GT-AG 0 0.0001650244299891 3325 rna-XM_010288021.1 27105615 2 45338 48662 Phaethon lepturus 97097 CAG|GTACCAACAC...ATAGCGTTACCA/TATAGCGTTACC...GCCAG|ATC 1 1 22.591
150886628 GT-AG 0 2.5056312274874143e-05 6236 rna-XM_010288021.1 27105615 3 48867 55102 Phaethon lepturus 97097 AAA|GTAAGTATTG...TTTTTCTTTTCA/AGCGTGTTCAAA...TATAG|GTA 1 1 38.705
150886629 GT-AG 0 1.000000099473604e-05 13384 rna-XM_010288021.1 27105615 4 55172 68555 Phaethon lepturus 97097 AAG|GTCAGTCTTT...TTGTCTTTTGTC/GTTGATTTCAAC...ATTAG|ATC 1 1 44.155
150886630 GT-AG 0 1.9109832204762784e-05 1285 rna-XM_010288021.1 27105615 5 68622 69906 Phaethon lepturus 97097 AAA|GTAAGTTGTC...AGATCTTTCTCT/TTCTAGTACATG...TACAG|GCC 1 1 49.368
150886631 GT-AG 0 0.0021880273538098 1290 rna-XM_010288021.1 27105615 6 69970 71259 Phaethon lepturus 97097 CAG|GTAACTGTTG...TTCTTTTTGATG/TTCTTTTTGATG...TTTAG|ATC 1 1 54.344
150886632 GT-AG 0 1.000000099473604e-05 995 rna-XM_010288021.1 27105615 7 71308 72302 Phaethon lepturus 97097 CAG|GTGAGTTCAT...ATTTCCTTTCCT/CACAATGTCATT...CGCAG|GGA 1 1 58.136

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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]);