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)

6 rows where transcript_id = 15733595

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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
84902110 GT-AG 0 1.000000099473604e-05 2553 rna-XM_017749750.1 15733595 1 64977598 64980150 Gossypium arboreum 29729 TTG|GTGAGTTATA...TTCATTTTACTC/TTTACTCTGATT...ATTAG|TTA 1 1 18.449
84902111 GT-AG 0 1.000000099473604e-05 314 rna-XM_017749750.1 15733595 2 64980230 64980543 Gossypium arboreum 29729 CAG|GTAAGTTTAC...CTGACATTAACA/CACTTTCTGACA...ATCAG|GTT 2 1 20.105
84902112 GT-AG 0 1.000000099473604e-05 76 rna-XM_017749750.1 15733595 3 64980612 64980687 Gossypium arboreum 29729 ATG|GTGAGATTCC...TTAGTTATGATT/GCTAATTTCATC...ATTAG|GTT 1 1 21.53
84902113 GT-AG 0 0.000158875476777 706 rna-XM_017749750.1 15733595 4 64980839 64981544 Gossypium arboreum 29729 AAG|GTATGACTCA...CTTTCCTTATTC/CCTTTCCTTATT...TGCAG|GAT 2 1 24.696
84902114 GT-AG 0 2.1711448079243417e-05 528 rna-XM_017749750.1 15733595 5 64982231 64982758 Gossypium arboreum 29729 CAA|GTAGGTTAAA...ACATCATTAGCC/GGAAACATCATT...TACAG|GGA 1 1 39.078
84902115 GT-AG 0 0.0039400340599186 95 rna-XM_017749750.1 15733595 6 64983443 64983537 Gossypium arboreum 29729 CAG|GTACATTCTG...CCATCTTTAACA/CCATCTTTAACA...TGCAG|AGT 1 1 53.417

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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]);