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 = 2569227

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
13841744 GT-AG 0 0.0003886102815509 919 rna-XM_026057580.1 2569227 3 6969935 6970853 Apteryx rowi 308060 GAG|GTAACATTAT...ATTTTTTCAATA/AATTTTTTCAAT...AACAG|TTA 0 1 76.689
13841745 GT-AG 0 1.000000099473604e-05 1684 rna-XM_026057580.1 2569227 4 6970997 6972680 Apteryx rowi 308060 ATG|GTAAGGAATA...TTTACCTTTTCA/TATTTGTTTACC...CACAG|GTA 2 1 79.232
13841746 GT-AG 0 1.000000099473604e-05 560 rna-XM_026057580.1 2569227 5 6972851 6973410 Apteryx rowi 308060 AAG|GTAAGTATTC...TTTCTCCAAACT/TTTCTCCAAACT...AATAG|GAA 1 1 82.255
13841747 GT-AG 0 7.373353760735025e-05 1287 rna-XM_026057580.1 2569227 6 6973563 6974849 Apteryx rowi 308060 AAA|GTAGGTATTC...AAATTTTTAAAT/AAATTTTTAAAT...TGCAG|GAC 0 1 84.957
13843928 GT-AG 0 1.000000099473604e-05 4459 rna-XM_026057580.1 2569227 1 6956272 6960730 Apteryx rowi 308060 AAG|GTTAGCAAAT...TACTTCTGATCT/CTACTTCTGATC...TGCAG|CAG   0 0.196
13843929 GT-AG 0 1.1522885352496291e-05 4871 rna-XM_026057580.1 2569227 2 6960785 6965655 Apteryx rowi 308060 AAG|GTACGTAAAC...TTTATTTTATTT/ATTTATTTTATT...TACAG|ATA   0 1.156

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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]);