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 = 623827

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
3437778 GT-AG 0 1.000000099473604e-05 64 rna-EDS130_LOCUS112 623827 1 296788 296851 Adineta ricciae 249248 GTG|GTAAGTCTAC...TATTTCTTTTTT/GTCGATTTCATC...TCAAG|AAT 0 1 26.552
3437779 GT-AG 0 2.172647801862595e-05 60 rna-EDS130_LOCUS112 623827 2 296044 296103 Adineta ricciae 249248 GAG|GTTACCCACC...CTTTTCATACTA/GTACTTTTCATA...TCTAG|GGC 0 1 56.671
3437780 GT-AG 0 1.000000099473604e-05 162 rna-EDS130_LOCUS112 623827 3 295680 295841 Adineta ricciae 249248 AAG|GTAAATAGGA...TTGACTTCAGTT/GTTCGATTGACT...ACTAG|GAT 1 1 65.566
3437781 GT-AG 0 0.1753451518753465 61 rna-EDS130_LOCUS112 623827 4 295266 295326 Adineta ricciae 249248 ATG|GTATATTATT...TTGTCCTTAATC/TTTGTCCTTAAT...TCTAG|GCA 0 1 81.11
3437782 GT-AG 0 6.760542827464473e-05 57 rna-EDS130_LOCUS112 623827 5 295133 295189 Adineta ricciae 249248 ACA|GTTAGTTAAT...CTTTCCTTAACC/CTTTCCTTAACC...ATTAG|ATG 1 1 84.456
3437783 GT-AG 0 0.0001246446051009 50 rna-EDS130_LOCUS112 623827 6 294915 294964 Adineta ricciae 249248 CTC|GTAAGCAGAT...TTTTTCTAGATT/AACTTTCTCAAT...CACAG|GTA 1 1 91.854
3437784 GT-AG 0 0.0146669592867414 56 rna-EDS130_LOCUS112 623827 7 294699 294754 Adineta ricciae 249248 AAG|GTTTCTGTTA...TTTTTCTTTTCA/TCGATTGTTATT...AATAG|TGA 2 1 98.899

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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]);