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 = 7665040

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
40334705 GT-AG 0 9.273180577214714e-05 1001 rna-XM_009999738.1 7665040 1 201052 202052 Chaetura pelagica 8897 CAG|GTAAGTTTTC...CAGTTCTTACCT/ACAGTTCTTACC...TGCAG|CCA 1 1 10.887
40334706 GT-AG 0 1.000000099473604e-05 1546 rna-XM_009999738.1 7665040 2 202167 203712 Chaetura pelagica 8897 TTG|GTAAATAATT...AATGTCTTCACT/AATGTCTTCACT...GACAG|GTG 1 1 17.859
40334707 GT-AG 0 1.6143350786528152e-05 553 rna-XM_009999738.1 7665040 3 203869 204421 Chaetura pelagica 8897 TGG|GTAAATACTT...TCTGTCTTAAAA/ATCTGTCTTAAA...TGCAG|GAG 1 1 27.401
40334708 GC-AG 0 1.000000099473604e-05 484 rna-XM_009999738.1 7665040 4 204571 205054 Chaetura pelagica 8897 CTG|GCAAGTCCTG...ATTTCTGTTTCT/AAAATGGTGAAC...CCTAG|TGG 0 1 36.514
40334709 GT-AG 0 1.000000099473604e-05 999 rna-XM_009999738.1 7665040 5 205199 206197 Chaetura pelagica 8897 CTG|GTATGGAGTA...AACATCTGAATG/TAACATCTGAAT...TTCAG|GTT 0 1 45.321
40334710 GT-AG 0 0.0001224337582174 850 rna-XM_009999738.1 7665040 6 206352 207201 Chaetura pelagica 8897 CAG|GTAAACCTAA...TTTTCCTTGTTT/AGAAAAGTCACT...TCAAG|ACT 1 1 54.74
40334711 GT-AG 0 1.0373269686799287e-05 446 rna-XM_009999738.1 7665040 7 207420 207865 Chaetura pelagica 8897 CAG|GTACTTGGTT...GTGTCTGTAACA/GTGTCTGTAACA...TACAG|GCT 0 1 68.073

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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]);