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 = 27151073

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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
151209861 GT-AG 0 1.000000099473604e-05 2964 rna-XM_020744327.1 27151073 1 30627034 30629997 Phalaenopsis equestris 78828 GTG|GTGAGTGCCG...GCTTCATTATTT/AATTGCTTCATT...TTCAG|GAT 0 1 24.504
151209862 GT-AG 0 0.0008801501808015 9742 rna-XM_020744327.1 27151073 2 30616656 30626397 Phalaenopsis equestris 78828 TAC|GTTTAGTTGG...ATTTTCCTGACA/TTATGGTTCATT...CACAG|AAT 0 1 41.316
151209863 GT-AG 0 1.000000099473604e-05 89 rna-XM_020744327.1 27151073 3 30616438 30616526 Phalaenopsis equestris 78828 TGG|GTAGGACACC...ATTATGCTAATG/ATTATGCTAATG...ATAAG|GGT 0 1 44.726
151209864 GT-AG 0 9.082681340874612e-05 565 rna-XM_020744327.1 27151073 4 30615641 30616205 Phalaenopsis equestris 78828 AGC|GTATTAGGCA...TTTCATTTATTG/TTTTCATTTATT...TATAG|CCT 1 1 50.859
151209865 GT-AG 0 1.984589061706026e-05 163 rna-XM_020744327.1 27151073 5 30615366 30615528 Phalaenopsis equestris 78828 ATG|GTGCTTTGTT...ATTACTTTACCT/TATTACTTTACC...TGCAG|GAA 2 1 53.82
151209866 GT-AG 0 0.0004776140606456 9838 rna-XM_020744327.1 27151073 6 30605416 30615253 Phalaenopsis equestris 78828 TGG|GTTTCGGATG...TTCTCTATAAAT/TTCTCTATAAAT...CCGAG|TCA 0 1 56.78
151209867 GT-AG 0 1.000000099473604e-05 939 rna-XM_020744327.1 27151073 7 30603463 30604401 Phalaenopsis equestris 78828 ATG|GTAATTATGG...CCATCCTAAACA/ATTCAGCTCACC...TGTAG|GAT 0 1 83.584

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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]);