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 = 8392209

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
45168859 GT-AG 0 4.779716930859738e-05 595 rna-XM_004485574.2 8392209 1 1428507 1429101 Cicer arietinum 3827 GAG|GTTTGTTTAT...TGTTTTTTGTTG/TTGTTGCTAAGA...TGCAG|TGT 0 1 13.672
45168860 GT-AG 0 3.2594020348232254e-05 85 rna-XM_004485574.2 8392209 2 1429228 1429312 Cicer arietinum 3827 CAG|GTATAATATT...TTTTGGTTAAAT/TTTTGGTTAAAT...TGCAG|GAA 0 1 17.011
45168861 GT-AG 0 2.49877913738252e-05 542 rna-XM_004485574.2 8392209 3 1429511 1430052 Cicer arietinum 3827 AAG|GTTTGTATCT...TTGTTTTTACTA/TTTGTTTTTACT...TGTAG|TTG 0 1 22.258
45168862 GT-AG 0 0.0001756614290711 87 rna-XM_004485574.2 8392209 4 1430281 1430367 Cicer arietinum 3827 AAG|GTAGATTATG...TGATTCTTATCT/ATGATTCTTATC...TGCAG|GAA 0 1 28.299
45168863 GT-AG 0 1.000000099473604e-05 778 rna-XM_004485574.2 8392209 5 1431493 1432270 Cicer arietinum 3827 GAG|GTAATTATGC...TTGTTATTGATG/TTGTTATTGATG...AGCAG|GAA 0 1 58.108
45168864 GT-AG 0 1.000000099473604e-05 679 rna-XM_004485574.2 8392209 6 1432559 1433237 Cicer arietinum 3827 CAG|GTTATAATGA...TAGTTTTTATTT/TTTTTATTTATC...TGTAG|GTG 0 1 65.739
45168865 GC-AG 0 1.000000099473604e-05 219 rna-XM_004485574.2 8392209 7 1433683 1433901 Cicer arietinum 3827 CAG|GCAAGTATAC...TGTCTTTTGATG/ATATTTCTAACT...TACAG|GTA 1 1 77.53

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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]);