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)

9 rows where transcript_id = 34243573

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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
191722127 GT-AG 0 1.000000099473604e-05 669 rna-XM_009666745.1 34243573 2 406441 407109 Struthio camelus 8801 CAG|GTAAGCAGTC...TATGTATTAAAG/TATGTATTAAAG...TTCAG|CTG 0 1 21.951
191722128 GT-AG 0 1.000000099473604e-05 859 rna-XM_009666745.1 34243573 3 407208 408066 Struthio camelus 8801 AAA|GTGAGGTTTT...CTGCTCTGAGCT/TCTGAGCTCAGT...TTTAG|GAG 2 1 30.804
191722129 GT-AG 0 1.000000099473604e-05 499 rna-XM_009666745.1 34243573 4 408164 408662 Struthio camelus 8801 ATA|GTAAGTAACC...CATTCCATACTG/TCCATACTGAAA...CTCAG|TCC 0 1 39.566
191722130 GT-AG 0 1.000000099473604e-05 141 rna-XM_009666745.1 34243573 5 408739 408879 Struthio camelus 8801 CAG|GTGAGTAAAA...CTACCCTTCACT/CTACCCTTCACT...TTCAG|GTT 1 1 46.432
191722131 GT-AG 0 0.0012214257163275 225 rna-XM_009666745.1 34243573 6 408988 409212 Struthio camelus 8801 AAG|GTAACTTCAG...ACATCTTTCACC/ACATCTTTCACC...TGCAG|TTC 1 1 56.188
191722132 GT-AG 0 2.334603008608113e-05 1050 rna-XM_009666745.1 34243573 7 409350 410399 Struthio camelus 8801 AGG|GTAGGTCTGT...TGAGCTTTGATG/TTGGTGCTGAGC...GACAG|GAA 0 1 68.564
191722133 GT-AG 0 1.000000099473604e-05 185 rna-XM_009666745.1 34243573 8 410427 410611 Struthio camelus 8801 TGG|GTAAGTGCGT...CAGTTCTTGATA/CAGTTCTTGATA...TCCAG|TGG 0 1 71.003
191722134 GT-AG 0 1.4482637732659612e-05 409 rna-XM_009666745.1 34243573 9 410738 411146 Struthio camelus 8801 AGG|GTAGGTATTG...CTCTTCTTGTCT/CCGCTGCTGATG...CTCAG|GAG 0 1 82.385
191722135 GT-AG 0 1.000000099473604e-05 1586 rna-XM_009666745.1 34243573 10 411227 412812 Struthio camelus 8801 GTG|GTAAGGAGCA...CTGCCTTTATCT/TCTGCCTTTATC...TGCAG|GGG 2 1 89.612

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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]);