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)

8 rows where transcript_id = 7224299

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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
37884098 GT-AG 0 1.000000099473604e-05 137 gene-CFOL_v3_00216 7224299 1 1353844 1353980 Cephalotus follicularis 3775 CAG|GTTATTCATT...TGTGTTTTGTTG/TTATATATAAAT...ATCAG|GTT 0 1 2.283
37884099 GT-AG 0 0.0216075163683972 1138 gene-CFOL_v3_00216 7224299 2 1354116 1355253 Cephalotus follicularis 3775 CTG|GTATGTTTTG...GCTTGCTTGATT/ATTCTTCTAATC...TTCAG|GGA 0 1 12.557
37884100 GT-AG 0 1.000000099473604e-05 1242 gene-CFOL_v3_00216 7224299 3 1355564 1356805 Cephalotus follicularis 3775 CAG|GTGTGAAATT...ATTATTTTATAG/TATTATTTTATA...AACAG|TTT 1 1 36.149
37884101 GT-AG 0 0.0133745719834767 108 gene-CFOL_v3_00216 7224299 4 1357039 1357146 Cephalotus follicularis 3775 ATT|GTATGGTTCT...GATTCTCTAATT/GATTCTCTAATT...GTTAG|TTG 0 1 53.881
37884102 GT-AG 0 0.0024823661083697 610 gene-CFOL_v3_00216 7224299 5 1357328 1357937 Cephalotus follicularis 3775 AAG|GTATTTATTT...TGATCATTAATC/TTGTTGATCATT...TTCAG|GTG 1 1 67.656
37884103 GT-AG 0 1.000000099473604e-05 80 gene-CFOL_v3_00216 7224299 6 1358060 1358139 Cephalotus follicularis 3775 AAG|GTGAAAATCA...AATTCTTTATGT/CAATTCTTTATG...TACAG|GAT 0 1 76.941
37884104 GT-AG 0 1.000000099473604e-05 744 gene-CFOL_v3_00216 7224299 7 1358209 1358952 Cephalotus follicularis 3775 CAG|GTAGAGTATT...ATTTCCTTCTTT/TTTCGGTTTATA...TCTAG|GCA 0 1 82.192
37884105 GT-AG 0 0.005034605192958 861 gene-CFOL_v3_00216 7224299 8 1359035 1359895 Cephalotus follicularis 3775 GAA|GTATGTGCTT...TGCCCTTTAAAT/GCTCTGCTAATG...ATCAG|GAT 1 1 88.432

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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]);