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)

8 rows where transcript_id = 14393829

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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
76886395 GT-AG 0 1.000000099473604e-05 2044 rna-XM_010148959.1 14393829 1 3742 5785 Eurypyga helias 54383 CAG|GTAAGAGAGA...ATATTTTTAAAT/ATACTTCTCATC...TGCAG|GTC 0 1 7.849
76886396 GT-AG 0 0.0005132460821868 1416 rna-XM_010148959.1 14393829 2 5906 7321 Eurypyga helias 54383 CAT|GTAAGCTAAT...GTTCTCTTAGAA/TCTATTTTCATT...AACAG|AAA 0 1 19.477
76886397 GT-AG 0 1.000000099473604e-05 1722 rna-XM_010148959.1 14393829 3 7451 9172 Eurypyga helias 54383 CAG|GTAAATGTGT...GAAGTTGTAATT/TTGTAATTGACT...TGCAG|GCT 0 1 31.977
76886398 GT-AG 0 1.000000099473604e-05 1517 rna-XM_010148959.1 14393829 4 9247 10763 Eurypyga helias 54383 AGT|GTAAGTAAAG...CTCACTTTACCT/AGTCTTCTCACT...CGCAG|GTA 2 1 39.147
76886399 GT-AG 0 1.000000099473604e-05 982 rna-XM_010148959.1 14393829 5 10925 11906 Eurypyga helias 54383 AAG|GTACGGTGTC...CATTCTGTGAAG/CTAAATATGATA...TTCAG|GAA 1 1 54.748
76886400 GT-AG 0 1.000000099473604e-05 890 rna-XM_010148959.1 14393829 6 12008 12897 Eurypyga helias 54383 GAG|GTACGGCCCT...CAATTGTTATTG/TTATTGCTAATC...TTTAG|TTT 0 1 64.535
76886401 GT-AG 0 1.000000099473604e-05 1140 rna-XM_010148959.1 14393829 7 13028 14167 Eurypyga helias 54383 AGG|GTAGGTGCCA...AAAATTTTCCCC/TACATTCTCAGG...TTCAG|TGC 1 1 77.132
76886402 GT-AG 0 2.6176954339729355e-05 1637 rna-XM_010148959.1 14393829 8 14281 15917 Eurypyga helias 54383 AAT|GTAAGTATAC...TTTTCCTCAGTA/TTTTTCCTCAGT...TTCAG|TTT 0 1 88.081

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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]);