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 = 38015537

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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
209850387 GT-AG 0 0.000297707105134 864 rna-XM_028046679.1 38015537 2 17921719 17922582 Vigna unguiculata 3917 GAG|GTATTTCCTG...ATTCTCATGAAG/AAGATTCTCATG...TGCAG|AAT 0 1 26.197
209850388 GT-AG 0 0.0224379981793297 451 rna-XM_028046679.1 38015537 3 17923800 17924250 Vigna unguiculata 3917 AAG|GTAACCTTGA...CTCTTCTTGCAT/ACTGTGCTGACT...TGCAG|GTT 2 1 61.503
209850389 GT-AG 0 7.334498857580887e-05 103 rna-XM_028046679.1 38015537 4 17924549 17924651 Vigna unguiculata 3917 CAG|GTAACACTTT...TGGCTTCTAACA/TGGCTTCTAACA...TCCAG|TCT 0 1 70.148
209850390 GT-AG 0 1.000000099473604e-05 405 rna-XM_028046679.1 38015537 5 17924865 17925269 Vigna unguiculata 3917 TTG|GTTAGTATAT...TTGTTTTTACTT/TTTGTTTTTACT...TCCAG|ATA 0 1 76.327
209850391 GT-AG 0 0.0003476761961175 269 rna-XM_028046679.1 38015537 6 17925444 17925712 Vigna unguiculata 3917 GCG|GTAATCTCAG...GTGTTCTGGATT/GTTATTTTCATT...CTCAG|ATT 0 1 81.375
209850392 GT-AG 0 1.000000099473604e-05 89 rna-XM_028046679.1 38015537 7 17925911 17925999 Vigna unguiculata 3917 GAG|GTTAGCCAAT...TTCGTCTTAATC/CATTCTTTCATC...TGAAG|GTG 0 1 87.119
209850393 GT-AG 0 1.000000099473604e-05 343 rna-XM_028046679.1 38015537 8 17926114 17926456 Vigna unguiculata 3917 CAG|GTTAGATAAA...GATGTTTTAAGA/TTTTATCTGATG...TACAG|GAT 0 1 90.426
209860053 GT-AG 0 0.0087211959625824 552 rna-XM_028046679.1 38015537 1 17920322 17920873 Vigna unguiculata 3917 CCG|GTACTCACTC...CAAATCTTAATC/CTTAATCTGATT...TTCAG|AGA   0 4.352

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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]);