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 = 11997991

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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
65073969 GT-AG 0 1.000000099473604e-05 78 rna-XM_026121105.1 11997991 1 11129951 11130028 Dromaius novaehollandiae 8790 ACG|GTAACAGCGG...GCCAGCGTGACG/GCCAGCGTGACG...CGCAG|GCG 0 1 8.852
65073970 GT-AG 0 1.000000099473604e-05 267 rna-XM_026121105.1 11997991 2 11130158 11130424 Dromaius novaehollandiae 8790 AAG|GTAAGCGGCG...ACATCTCTGCTC/CACGTAGGGATT...ATCAG|AGG 0 1 22.951
65073971 GT-AG 0 1.2393154484221749e-05 322 rna-XM_026121105.1 11997991 3 11130586 11130907 Dromaius novaehollandiae 8790 CCT|GTAAGTGTCG...TCATACTTACTA/TACTTACTAATT...TCTAG|CGT 2 1 40.546
65073972 GT-AG 0 1.000000099473604e-05 582 rna-XM_026121105.1 11997991 4 11131122 11131703 Dromaius novaehollandiae 8790 GAG|GTGAGGCAGT...TTGCTTTTAATC/TTGCTTTTAATC...TCCAG|ACC 0 1 63.934
65073973 GT-AG 0 1.000000099473604e-05 335 rna-XM_026121105.1 11997991 5 11131805 11132139 Dromaius novaehollandiae 8790 GAG|GTGAGCAGGA...TGCCTTTTAAAT/TTAAATCTAACT...CCTAG|AAT 2 1 74.973
65073974 GT-AG 0 1.000000099473604e-05 630 rna-XM_026121105.1 11997991 6 11132278 11132907 Dromaius novaehollandiae 8790 GAG|GTAAAAACTG...CCGTCCTCTGCT/TCTGGCCGGACA...TTCAG|GTT 2 1 90.055

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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]);