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 = 15088605

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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
81573293 GT-AG 0 1.000000099473604e-05 608 rna-XM_009811456.1 15088605 1 429 1036 Gavia stellata 37040 TGT|GTAAGAATTG...TTTGTCTAACTG/TTTTGTCTAACT...TTCAG|ATT 1 1 8.816
81573294 GT-AG 0 2.2014682338533067e-05 1965 rna-XM_009811456.1 15088605 2 1080 3044 Gavia stellata 37040 TTG|GTAAGTTCAT...TTTCCCTGAAAT/GAAATGTTGATA...CAAAG|TCT 2 1 14.01
81573295 GT-AG 0 3.826287857327046e-05 362 rna-XM_009811456.1 15088605 3 3085 3446 Gavia stellata 37040 GAG|GTAATCTAAT...GTATCTGTAATA/TTTGTACTAATG...CCTAG|GTG 0 1 18.841
81573296 GT-AG 0 1.000000099473604e-05 85 rna-XM_009811456.1 15088605 4 3575 3659 Gavia stellata 37040 GAG|GTGAGTGGAA...CATTCATTAGTG/ACAAGTTTTACA...TACAG|ACA 2 1 34.3
81573297 GC-AG 0 1.000000099473604e-05 838 rna-XM_009811456.1 15088605 5 3752 4589 Gavia stellata 37040 TAG|GCAAGTACAG...ACAGTCTGAATC/ATCACACTAACA...CTCAG|ATT 1 1 45.411
81573298 GT-AG 0 1.000000099473604e-05 8631 rna-XM_009811456.1 15088605 6 4715 13345 Gavia stellata 37040 CAG|GTCAGTCATG...TTTTGTTTATTT/TTTTTGTTTATT...TCTAG|ACA 0 1 60.507
81573299 GT-AG 0 1.000000099473604e-05 145 rna-XM_009811456.1 15088605 7 13502 13646 Gavia stellata 37040 CAG|GTAAATCAAT...CAAATCTTGATG/TTGATGTTAATT...TACAG|AAA 0 1 79.348

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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]);