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 = 11997920

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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
65073212 GT-AG 0 1.000000099473604e-05 189 rna-XM_026115916.1 11997920 1 8225181 8225369 Dromaius novaehollandiae 8790 TCA|GTGAGTGCGG...GGGTACTTCTCT/TGGATGCTGACG...TACAG|ACA 1 1 4.762
65073213 GT-AG 0 1.000000099473604e-05 272 rna-XM_026115916.1 11997920 2 8225546 8225817 Dromaius novaehollandiae 8790 CTG|GTACGGCGCT...CTCTCTTTATTA/TTTGATTTAATA...TATAG|AAT 0 1 10.664
65073214 GT-AG 0 2.102844305677777e-05 905 rna-XM_026115916.1 11997920 3 8225881 8226785 Dromaius novaehollandiae 8790 GAG|GTAAGCCATA...AGAACTTTAAAC/AGAACTTTAAAC...CCTAG|TTC 0 1 12.777
65073215 GT-AG 0 1.2994712018629525e-05 1246 rna-XM_026115916.1 11997920 4 8226881 8228126 Dromaius novaehollandiae 8790 GAG|GTAGGCCTGA...GCTGTTTTCTTT/ACATGCTCCATT...ACCAG|GCC 2 1 15.962
65073216 GT-AG 0 2.165594610769132e-05 1198 rna-XM_026115916.1 11997920 5 8228393 8229590 Dromaius novaehollandiae 8790 GAG|GTAAGTTTGT...TTTGCCTTTGCA/GCATTTCTCAGT...TGCAG|AGT 1 1 24.883
65073217 GT-AG 0 1.000000099473604e-05 1301 rna-XM_026115916.1 11997920 6 8231568 8232868 Dromaius novaehollandiae 8790 TTG|GTAAGTGATG...ATGATTTGGAAA/GATCAATTCATG...TGCAG|ACA 1 1 91.18
65073218 GT-AG 0 1.584958913302309e-05 1064 rna-XM_026115916.1 11997920 7 8232996 8234059 Dromaius novaehollandiae 8790 CCG|GTTGGTATTT...AATTCCTTGACA/TTCCATCTAACC...TGCAG|CAA 2 1 95.439

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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]);