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 = 27368748

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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
152380240 GT-AG 0 1.000000099473604e-05 30955 rna-XM_032638209.1 27368748 1 165020773 165051727 Phocoena sinus 42100 GTG|GTCAGTTATT...ATGATTTTATAT/TTTTATATCATT...CTTAG|GAT 1 1 1.745
152380241 GT-AG 0 1.000000099473604e-05 31215 rna-XM_032638209.1 27368748 2 164989032 165020246 Phocoena sinus 42100 AAG|GTGAGTGGTC...TTTTCCTTTGCT/CTGTTTCTGATT...TCCAG|CCC 2 1 12.942
152380242 GT-AG 0 1.000000099473604e-05 6514 rna-XM_032638209.1 27368748 3 164982488 164989001 Phocoena sinus 42100 AAG|GTAAAGTAGT...TTCTTTGTGATC/TTCTTTGTGATC...TGTAG|TTA 2 1 13.58
152380243 GT-AG 0 1.000000099473604e-05 813 rna-XM_032638209.1 27368748 4 164981551 164982363 Phocoena sinus 42100 CTG|GTAAGGAGAA...TTAGCCTAAAAT/AGTACACTAATG...CTTAG|GGT 0 1 16.22
152380244 GT-AG 0 0.0005095760609005 343 rna-XM_032638209.1 27368748 5 164981080 164981422 Phocoena sinus 42100 AAG|GTAATCATTT...TCAGCCTTGAAA/GGGGACTTGATT...TTCAG|CCA 2 1 18.944
152380245 GT-AG 0 1.000000099473604e-05 2008 rna-XM_032638209.1 27368748 6 164978974 164980981 Phocoena sinus 42100 CAA|GTGAGTGGCT...TTTTTCTTTTTT/GAATAATTTATA...ACCAG|GTG 1 1 21.03
152380246 GT-AG 0 0.0001606977464847 5995 rna-XM_032638209.1 27368748 7 164972881 164978875 Phocoena sinus 42100 AGG|GTATGTAAAG...CTGATTTTAAAC/TGTGAACTGATT...TGCAG|ATC 0 1 23.116

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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]);