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 = 26701841

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
148094807 GT-AG 0 1.000000099473604e-05 6083 rna-XM_009489298.1 26701841 1 17981 24063 Pelecanus crispus 36300 CAG|GTAAATGGCT...TTTTCTTTTTCT/CATTCATATACC...TTTAG|GTG 1 1 6.277
148094808 GT-AG 0 0.0238196713921863 728 rna-XM_009489298.1 26701841 2 24191 24918 Pelecanus crispus 36300 GGG|GTAACTTCTG...GCTTTCTTTTCC/TCCTGTCAGACT...CTCAG|AGA 2 1 20.022
148094809 GT-AG 0 1.000000099473604e-05 2625 rna-XM_009489298.1 26701841 3 25110 27734 Pelecanus crispus 36300 CAA|GTGAGTCCCG...CAGTTTTTAAGA/CAGTTTTTAAGA...GGCAG|CTT 1 1 40.693
148094810 GT-AG 0 1.000000099473604e-05 3191 rna-XM_009489298.1 26701841 4 27860 31050 Pelecanus crispus 36300 AGG|GTGAGTTTTA...AGGTCCTTGCCC/TATGTTCTGATG...GGCAG|ATG 0 1 54.221
148094811 GT-AG 0 1.000000099473604e-05 319 rna-XM_009489298.1 26701841 5 31202 31520 Pelecanus crispus 36300 AAG|GTAACAGTGT...TTGTCCTCACAG/TTTGTCCTCACA...TCTAG|GTG 1 1 70.563
148094812 GT-AG 0 0.0066500039248325 602 rna-XM_009489298.1 26701841 6 31667 32268 Pelecanus crispus 36300 CTG|GTAACTTTTT...GGTGTTTGAGTG/GACTAGCTCATC...CACAG|AAA 0 1 86.364

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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]);