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 = 38341168

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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
211992398 GT-AG 0 1.000000099473604e-05 76 rna-XM_028021205.1 38341168 2 17866825 17866900 Xiphophorus couchianus 32473 CAG|GTGGCGCGGA...TTTACTTTATTA/ACTTTATTAATC...TTCAG|GTT 0 1 31.142
211992399 GT-AG 0 1.1954709352739052e-05 1292 rna-XM_028021205.1 38341168 3 17865434 17866725 Xiphophorus couchianus 32473 AAG|GTATGAATTG...TTTTCCGTCTCT/TCCACACTGATT...TGCAG|GTA 0 1 33.725
211992400 GT-AG 0 1.000000099473604e-05 925 rna-XM_028021205.1 38341168 4 17862982 17863906 Xiphophorus couchianus 32473 CAG|GTGAGACCCA...ATAGTTTTGACA/ATAGTTTTGACA...TTCAG|GTG 0 1 73.552
211992401 GT-AG 0 1.000000099473604e-05 1794 rna-XM_028021205.1 38341168 5 17860456 17862249 Xiphophorus couchianus 32473 CAG|GTACAGGTCA...AAAACCTTTATG/CTGCATCTAATT...CCTAG|ATA 0 1 92.645
211992402 GT-AG 0 3.2372485780170864e-05 390 rna-XM_028021205.1 38341168 6 17859807 17860196 Xiphophorus couchianus 32473 CAG|GTAATCCTGG...CTTTTCTGAATC/TCTTTTCTGAAT...TACAG|GAA 1 1 99.4
211997981 GT-AG 0 1.000000099473604e-05 7262 rna-XM_028021205.1 38341168 1 17867811 17875072 Xiphophorus couchianus 32473 GAG|GTGAGTGTGG...CTCTCCTTTCTT/GATATTTTCATT...TTCAG|GAT   0 11.659

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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]);