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 = 26253875

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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
145281172 GT-AG 0 1.7813917650213992e-05 1550 rna-gnl|WGS:LOND|AHF37_00031 26253875 1 193142 194691 Paragonimus kellicotti 100269 AAG|GTAGGTTTCG...GTTTTCATAGAT/GGCGTTTTCATA...TTCAG|CAG 1 1 12.217
145281173 GT-AG 0 1.000000099473604e-05 8114 rna-gnl|WGS:LOND|AHF37_00031 26253875 2 195079 203192 Paragonimus kellicotti 100269 CTG|GTGAGCAATT...TCGGTTTTGAAA/TTTATTTTCATC...AACAG|AAG 1 1 43.528
145281174 GT-AG 0 0.0018607491435245 4407 rna-gnl|WGS:LOND|AHF37_00031 26253875 3 203481 207887 Paragonimus kellicotti 100269 GCA|GTAAGTTGAC...TGATTCTTAACT/TGATTCTTAACT...ATCAG|CCT 1 1 66.828
145281175 GT-AG 0 5.690895674801449e-05 4704 rna-gnl|WGS:LOND|AHF37_00031 26253875 4 207989 212692 Paragonimus kellicotti 100269 CAA|GTAAGTTTGG...ATGCACTTAACG/GCTTTGCTCACT...TTCAG|GTT 0 1 75.0
145281176 GT-AG 0 1.000000099473604e-05 20628 rna-gnl|WGS:LOND|AHF37_00031 26253875 5 212830 233457 Paragonimus kellicotti 100269 ATG|GTGAGTGATG...TAATTTTCAATA/CTAATTTTCAAT...TTCAG|TTG 2 1 86.084
145281177 GT-AG 0 6.025289027679637e-05 1529 rna-gnl|WGS:LOND|AHF37_00031 26253875 6 233503 235031 Paragonimus kellicotti 100269 TAG|GTAGGTTTTG...CGTTGCTTATCA/GCGTTGCTTATC...TTCAG|GAT 2 1 89.725

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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]);