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)

9 rows where transcript_id = 38490416

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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
213116140 GT-AG 0 0.0021066558991363 871 rna-XM_020546998.3 38490416 1 297692583 297693453 Zea mays 4577 TCT|GTAAGCTCCC...GTTAATTTAATC/GTTAATTTAATC...TGCAG|TCA 0 1 1.374
213116141 GT-AG 0 1.000000099473604e-05 78 rna-XM_020546998.3 38490416 2 297693490 297693567 Zea mays 4577 CAG|GTTTGAGTCT...AGAACCTGATTT/CCTGATTTCATC...GTCAG|TTC 0 1 2.091
213116142 GT-AG 0 0.0001201542186816 131 rna-XM_020546998.3 38490416 3 297693910 297694040 Zea mays 4577 AAG|GTATAAATAA...CTTGCATTAACC/CTTGCATTAACC...AGCAG|GGA 0 1 8.901
213116143 GT-AG 0 0.0020561673286748 98 rna-XM_020546998.3 38490416 4 297694300 297694397 Zea mays 4577 TTG|GTATTATTGC...CATTCTTCAAAT/TTCAAATTCACA...AACAG|ATG 1 1 14.058
213116144 GT-AG 0 1.000000099473604e-05 100 rna-XM_020546998.3 38490416 5 297694627 297694726 Zea mays 4577 ACA|GTAAGATAAA...TTTCCTGTATTT/CTGTATTTCATC...TGCAG|TGG 2 1 18.618
213116145 GT-AG 0 1.000000099473604e-05 107 rna-XM_020546998.3 38490416 6 297694878 297694984 Zea mays 4577 CTT|GTAAGAAAAC...CTTTTTTTAATA/CTTTTTTTAATA...ATCAG|GTA 0 1 21.625
213116146 GT-AG 0 3.540073829400987e-05 545 rna-XM_020546998.3 38490416 7 297695171 297695715 Zea mays 4577 CAG|GTATAGTCAC...TTTTCCTAGGTT/TAGGTTCTGATA...TCCAG|GTA 0 1 25.329
213116147 GT-AG 0 1.000000099473604e-05 712 rna-XM_020546998.3 38490416 8 297696919 297697630 Zea mays 4577 GAG|GTACAAACCT...TCATTCTGAACA/TGTATTATCATT...TCCAG|GAG 0 1 49.283
213116148 GT-AG 0 1.000000099473604e-05 1090 rna-XM_020546998.3 38490416 9 297698372 297699461 Zea mays 4577 GAG|GTGCATACAT...CAATTGTTGATT/CAATTGTTGATT...AACAG|ATA 0 1 64.038

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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]);