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 = 29501494

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
164358591 GT-AG 0 1.249677515977093 220 rna-XM_014248771.1 29501494 1 14609337 14609556 Pseudopodoces humilis 181119 AT|GTGAGTGCGG...CTTTTCTCATCT/CCTTTTCTCATC...CGCAG|GCT 2 1 0.015
164358592 GT-AG 0 1.000000099473604e-05 2653 rna-XM_014248771.1 29501494 2 14606533 14609185 Pseudopodoces humilis 181119 GAG|GTGAGGGCGG...TCTGTCTTATTT/ATCTGTCTTATT...TTCAG|TTG 0 1 1.115
164358593 GT-AG 0 1.000000099473604e-05 2987 rna-XM_014248771.1 29501494 3 14603458 14606444 Pseudopodoces humilis 181119 GAG|GTATGAAAAA...GTTTTTTTCCCG/AGCAGCATAATA...TTTAG|GTC 1 1 1.756
164358594 GT-AG 0 0.0001347542442273 2361 rna-XM_014248771.1 29501494 4 14601011 14603371 Pseudopodoces humilis 181119 AAG|GTAGACAATA...TTTGTTTTGATT/TTTGTTTTGATT...CTCAG|GAA 0 1 2.383
164358595 GT-AG 0 1.000000099473604e-05 1112 rna-XM_014248771.1 29501494 5 14599787 14600898 Pseudopodoces humilis 181119 AGG|GTAAGTGTAA...ATCTTTTTAACT/ATCTTTTTAACT...TATAG|GGC 1 1 3.199
164358596 GT-AG 0 0.0003389336917574 1358 rna-XM_014248771.1 29501494 6 14598282 14599639 Pseudopodoces humilis 181119 CAG|GTAAACTTAG...TTATTATTGATT/TTATTATTGATT...TACAG|ATG 1 1 4.271
164358597 GT-AG 0 0.0947082096047129 2966 rna-XM_014248771.1 29501494 7 14593833 14596798 Pseudopodoces humilis 181119 CAG|GTATGCTTAA...TTTTTCTTTTCT/TTCTTCTCTATT...GCTAG|ATC 2 1 15.078
164358598 GT-AG 0 1.000000099473604e-05 3984 rna-XM_014248771.1 29501494 8 14589757 14593740 Pseudopodoces humilis 181119 GAG|GTAATGTGTC...TTTCCTTTTGCT/GTGATTTTCACA...TTCAG|GGA 1 1 15.748

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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]);