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 = 25413765

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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
140208649 GT-AG 0 1.000000099473604e-05 97 rna-XM_006645132.2 25413765 1 30432890 30432986 Oryza brachyantha 4533 TAG|GTGAGGCGTC...GTTTTCTGGAAC/CCAATTCTGAAG...TGCAG|AAA 1 1 22.292
140208650 GT-AG 0 1.090237413749015e-05 379 rna-XM_006645132.2 25413765 2 30433066 30433444 Oryza brachyantha 4533 CAG|GTGTTATTTC...ATAACTATGATA/CCATGTCTAACG...AACAG|ATT 2 1 24.349
140208651 GT-AG 0 1.000000099473604e-05 551 rna-XM_006645132.2 25413765 3 30433513 30434063 Oryza brachyantha 4533 ATG|GTGAGACTGA...TTAATCTAACCA/ATTAATCTAACC...GGCAG|GAT 1 1 26.12
140208652 GT-AG 0 0.0006563935254789 654 rna-XM_006645132.2 25413765 4 30434215 30434868 Oryza brachyantha 4533 TAG|GTATGCCAAT...TTTTTCATGACG/TTTTTTTTCATG...TCTAG|GGA 2 1 30.052
140208653 GT-AG 0 0.0012237189802075 650 rna-XM_006645132.2 25413765 5 30435435 30436084 Oryza brachyantha 4533 CTC|GTAAGTTTTC...ATCATTTTATCT/TTTTATCTGATA...CACAG|GTC 1 1 44.792
140208654 GT-AG 0 1.000000099473604e-05 313 rna-XM_006645132.2 25413765 6 30436904 30437216 Oryza brachyantha 4533 CAG|GTCAGTCGTC...ACCTTTTTATTA/TTTATTATGATT...TACAG|AAT 1 1 66.12

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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]);