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 = 8322082

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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
44702283 GT-AG 0 1.000000099473604e-05 476 rna-XM_006830862.1 8322082 1 52120165 52120640 Chrysochloris asiatica 185453 AGG|GTTGGCGCCA...GTTTCTGTCTTC/CCCATCCCCACC...CTCAG|GAC 0 1 4.66
44702284 GT-AG 0 0.0006555211820841 1183 rna-XM_006830862.1 8322082 2 52120773 52121955 Chrysochloris asiatica 185453 ACG|GTACTCCCTT...AGCTCCTCAGAG/GAGCTCCTCAGA...CCTAG|GCT 0 1 13.204
44702285 GT-AG 0 0.0053668631875623 1798 rna-XM_006830862.1 8322082 3 52122122 52123919 Chrysochloris asiatica 185453 CCT|GTACCAGGCA...AGTCCTGTGACA/AGTCCTGTGACA...TTCAG|ACT 1 1 23.948
44702286 GT-AG 0 1.000000099473604e-05 83 rna-XM_006830862.1 8322082 4 52124156 52124238 Chrysochloris asiatica 185453 TGG|GTGAGGCCCC...GAACCCATAGCG/GGGGAACCCATA...GGCAG|GGC 0 1 39.223
44702287 GT-AG 0 1.000000099473604e-05 441 rna-XM_006830862.1 8322082 6 52133643 52134083 Chrysochloris asiatica 185453 GGA|GTGAGCGTAG...CTCCCCTTCATC/CTCCCCTTCATC...GGAAG|GGG 2 1 71.197
44702288 GT-AG 0 1.000000099473604e-05 1245 rna-XM_006830862.1 8322082 7 52134178 52135422 Chrysochloris asiatica 185453 GGG|GTGGGGCCTC...GCTTTCCGGATG/GTGAGTCTCAAG...GAAAG|TGG 0 1 77.282
44702289 GT-AG 0 1.000000099473604e-05 300 rna-XM_006830862.1 8322082 8 52135623 52135922 Chrysochloris asiatica 185453 TCG|GTCAGTGAGG...GCTCCTTTGAAA/GCTCCTTTGAAA...CTTAG|TGC 2 1 90.227

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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]);