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)

7 rows where transcript_id = 25075806

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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
137882746 GT-AG 0 1.000000099473604e-05 3150 rna-XM_020759135.1 25075806 1 244496 247645 Orbicella faveolata 48498 AGG|GTAAGTGGTT...ATAACCTTATTA/TATAACCTTATT...TTCAG|GTG 2 1 27.787
137882747 GT-AG 0 1.000000099473604e-05 897 rna-XM_020759135.1 25075806 2 247813 248709 Orbicella faveolata 48498 GAG|GTAATGAAAG...TATGCTTTGATC/TATGCTTTGATC...TACAG|ATG 1 1 36.693
137882748 GT-AG 0 1.000000099473604e-05 905 rna-XM_020759135.1 25075806 3 249086 249990 Orbicella faveolata 48498 AAG|GTGAGCACAT...AACTTATTAAAT/AATCAACTTATT...TTCAG|GAC 2 1 56.747
137882749 GT-AG 0 1.000000099473604e-05 132 rna-XM_020759135.1 25075806 4 250109 250240 Orbicella faveolata 48498 AGG|GTAAGTGTTC...CCATATTTAATA/TATTTGTTCATA...TTTAG|GTC 0 1 63.04
137882750 GT-AG 0 1.000000099473604e-05 1150 rna-XM_020759135.1 25075806 5 250574 251723 Orbicella faveolata 48498 CAG|GTAGGTTGAA...TAGACCTTGTTT/TCCTGGCTAACG...TGTAG|ATT 0 1 80.8
137882751 GT-AG 0 8.580785877350587e-05 1993 rna-XM_020759135.1 25075806 6 251823 253815 Orbicella faveolata 48498 CAG|GTAACGCACA...CAAACCTTATCT/CCAAACCTTATC...TTCAG|TAT 0 1 86.08
137882752 GT-AG 0 2.79064696734713e-05 250 rna-XM_020759135.1 25075806 7 253939 254188 Orbicella faveolata 48498 AAG|GTACGTATCA...TTCTTTTTGCTT/ACGTTGTTGATG...TTCAG|AAC 0 1 92.64

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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]);