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 = 22246016

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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
120576496 GT-AG 0 1.000000099473604e-05 1115 rna-XM_029205648.1 22246016 1 10981 12095 Monodon monoceros 40151 CAT|GTAAGTGCGG...GTTTCCTTTCCC/TGATTGCTGACC...GAAAG|AAT 2 1 4.625
120576497 GT-AG 0 1.000000099473604e-05 968 rna-XM_029205648.1 22246016 2 9862 10829 Monodon monoceros 40151 GAT|GTGAGTGTGT...CAGGTCTGACCA/CCAGGTCTGACC...TGTAG|CTA 0 1 17.801
120576498 GT-AG 0 1.000000099473604e-05 95 rna-XM_029205648.1 22246016 3 9649 9743 Monodon monoceros 40151 GCT|GTGAGTACCT...CCGTCCTTGGCA/TGGCACCTGACG...CGCAG|ATA 1 1 28.098
120576499 GT-AG 0 0.0001202587997437 1219 rna-XM_029205648.1 22246016 4 8311 9529 Monodon monoceros 40151 CGG|GTAACTGGAA...CAAACCTTTATG/CAAACCTTTATG...CACAG|ATC 0 1 38.482
120576500 GT-AG 0 1.000000099473604e-05 1147 rna-XM_029205648.1 22246016 5 6970 8116 Monodon monoceros 40151 CAG|GTAAGTCCGA...TCTTCCTTCTCT/TCTGCCGTTATT...CTCAG|CCA 2 1 55.41
120576501 GT-AG 0 1.000000099473604e-05 1474 rna-XM_029205648.1 22246016 6 5379 6852 Monodon monoceros 40151 CCG|GTAAGCCTCT...GGAGACTTCACA/GGAGACTTCACA...CCCAG|CAT 2 1 65.62
120576502 GT-AG 0 1.000000099473604e-05 87 rna-XM_029205648.1 22246016 8 5149 5235 Monodon monoceros 40151 GAG|GTGAAGGGTC...TCCCTCTTCCTC/CCAGGGATCACC...GACAG|TAT 0 1 78.01
120576503 GT-AG 0 1.000000099473604e-05 1447 rna-XM_029205648.1 22246016 9 3603 5049 Monodon monoceros 40151 AAG|GTGAAGGGCC...ATTTCCGTCTCC/CTCAGGCTGACT...CCCAG|AAC 0 1 86.649

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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]);