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)

6 rows where transcript_id = 22411741

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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
121674952 GT-AG 0 0.0003000663955223 90 rna-gnl|WGS:JAEPRB|INT45_00000034-RA 22411741 1 121115 121204 Mucor circinatus 2054153 TGG|GTACTTATTT...GGTGTATTAATA/GGTGTATTAATA...TATAG|GAA 0 1 10.714
121674953 GT-AG 0 6.600922765740036e-05 120 rna-gnl|WGS:JAEPRB|INT45_00000034-RA 22411741 2 120883 121002 Mucor circinatus 2054153 CTG|GTAATATTAT...TTTTCTTTAATA/ATTATTCTTACA...AATAG|TTG 1 1 19.603
121674954 GT-AG 0 1.000000099473604e-05 110 rna-gnl|WGS:JAEPRB|INT45_00000034-RA 22411741 3 120721 120830 Mucor circinatus 2054153 AGG|GTAGTTATTT...TTAAACTAAATA/ATTAAACTAAAT...TGTAG|ATG 2 1 23.73
121674955 GT-AG 0 1.6407940478436076e-05 71 rna-gnl|WGS:JAEPRB|INT45_00000034-RA 22411741 4 120492 120562 Mucor circinatus 2054153 GGG|GTAAACCTCT...GCAGTTTTATGC/GACATACTCAAT...TATAG|AGT 1 1 36.27
121674956 GT-AG 0 0.0006271554337786 103 rna-gnl|WGS:JAEPRB|INT45_00000034-RA 22411741 5 120349 120451 Mucor circinatus 2054153 AAA|GTAAGCTTAC...TATTATTTAAAT/AACATTCTAATA...TATAG|TAA 2 1 39.444
121674957 GT-AG 0 1.000000099473604e-05 104 rna-gnl|WGS:JAEPRB|INT45_00000034-RA 22411741 6 120052 120155 Mucor circinatus 2054153 ATG|GTACGTAAAA...ATATATTTATAC/TTTATACTAACA...AATAG|GTT 0 1 54.762

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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]);