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 = 38228126

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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
211079444 GT-AG 0 6.994266790497063e-05 641 rna-XM_046995424.1 38228126 1 8329349 8329989 Xenia sp. carnegie-2017 2897299 CAG|GTATAACGGC...CCTTTTTTAATC/CCTTTTTTAATC...TCTAG|CCG 1 1 10.424
211079445 GT-AG 0 0.0010793865685436 1056 rna-XM_046995424.1 38228126 2 8331528 8332583 Xenia sp. carnegie-2017 2897299 AGG|GTATGTAAGA...TCGTTCTTAACC/TCGTTCTTAACC...TGTAG|GCT 0 1 56.362
211079446 GT-AG 0 1.000000099473604e-05 1578 rna-XM_046995424.1 38228126 3 8332806 8334383 Xenia sp. carnegie-2017 2897299 GAG|GTTAGTTGTC...TCTTTTTTATTG/GTCTTTTTTATT...TATAG|TTC 0 1 62.993
211079447 GT-AG 0 1.000000099473604e-05 829 rna-XM_046995424.1 38228126 4 8334649 8335477 Xenia sp. carnegie-2017 2897299 TAG|GTGCGAATGA...TCATTCTTGAAG/GTATAGATCATT...CATAG|TCT 1 1 70.908
211079448 GT-AG 0 0.0189781969163696 935 rna-XM_046995424.1 38228126 5 8335865 8336799 Xenia sp. carnegie-2017 2897299 CAG|GTATGTTCTG...TATGTCTTAATT/TATGTCTTAATT...TTTAG|AAT 1 1 82.467
211079449 GT-AG 0 1.000000099473604e-05 1081 rna-XM_046995424.1 38228126 6 8337103 8338183 Xenia sp. carnegie-2017 2897299 ATG|GTAAGAGCAA...AATGTTTTATCC/AAATGTTTTATC...TTTAG|GTG 1 1 91.517

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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]);