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 = 11121917

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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
61577745 GT-TA 0 3.645534263404485e-05 120 rna-XM_047063245.1 11121917 1 4170564 4170683 Dermatophagoides farinae 6954 ATT|GTAAATATCG...AGATCATCATCT/CATCATCTAATA...CAATA|ATT 0 1 2.38
61577746 GT-AG 0 4.513186135543918e-05 64 rna-XM_047063245.1 11121917 2 4169601 4169664 Dermatophagoides farinae 6954 ACG|GTAAATATTA...TTTTTTTTTTCT/CTATGATTGATT...ATTAG|ATA 2 1 15.587
61577747 GT-AG 0 4.371553319686812e-05 71 rna-XM_047063245.1 11121917 3 4165990 4166060 Dermatophagoides farinae 6954 TAG|GTACAGGTTA...TTGTTTTTAACA/TTGTTTTTAACA...TTCAG|CTT 2 1 67.592
61577748 TC-AG 0 4.263956043386177e-05 132 rna-XM_047063245.1 11121917 4 4165735 4165866 Dermatophagoides farinae 6954 ACA|TCAACATAAT...TATTCATCAACA/AATGTATTCATC...GATAG|TTC 2 1 69.399
61577749 GT-AG 0 1.000000099473604e-05 282 rna-XM_047063245.1 11121917 5 4165427 4165708 Dermatophagoides farinae 6954 TTG|GTAAAGATTT...ACAATCATAATT/ATCATAATTATC...AACAG|CTG 1 1 69.781
61577750 GT-AG 0 1.000000099473604e-05 58 rna-XM_047063245.1 11121917 6 4164534 4164591 Dermatophagoides farinae 6954 GAG|GTAAGTTTAT...TATTTATTATTT/ATTTATATCATT...TTTAG|CTC 2 1 82.048
61577751 CA-AG 0 0.1282923477348319 111 rna-XM_047063245.1 11121917 7 4163362 4163472 Dermatophagoides farinae 6954 CAA|CAATATTATC...CTTGTTTTGAAC/CTTGTTTTGAAC...ACCAG|AAT 1 1 97.635

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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]);