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 = 4057423

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Suggested facets: phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
21001423 GT-AG 0 1.000000099473604e-05 880 rna-gnl|WGS:VWZK|BARMAR_R04543_mrna 4057423 1 428 1307 Baryphthengus martii 176943 AAG|GTGAGCGACC...TGCCCCTCACCC/CCTGCACTCACT...AGCAG|CCA 1 1 10.67
21001424 GT-AG 0 1.000000099473604e-05 111 rna-gnl|WGS:VWZK|BARMAR_R04543_mrna 4057423 2 1439 1549 Baryphthengus martii 176943 GAG|GTACTGGGGT...CCTCCCTCACCA/GCCTGTCTCATC...CGCAG|CTC 0 1 22.222
21001425 GT-AG 0 1.000000099473604e-05 539 rna-gnl|WGS:VWZK|BARMAR_R04543_mrna 4057423 3 1677 2215 Baryphthengus martii 176943 CCG|GTGAGGGGCA...GGAGCCTGGGCT/GGGCTGCTCAGG...GGCAG|CAC 1 1 33.422
21001426 GT-AG 0 1.000000099473604e-05 107 rna-gnl|WGS:VWZK|BARMAR_R04543_mrna 4057423 4 2305 2411 Baryphthengus martii 176943 AAG|GTAGGGACCC...CCCCCTCTGACC/CCCCCTCTGACC...CCCAG|GAA 0 1 41.27
21001427 GT-AG 0 1.000000099473604e-05 614 rna-gnl|WGS:VWZK|BARMAR_R04543_mrna 4057423 5 2478 3091 Baryphthengus martii 176943 CAG|GTACTGCAAC...ATCCCCGTGTGT/ATGGGGGTGACA...CCCAG|GAG 0 1 47.09
21001428 GT-AG 0 1.000000099473604e-05 102 rna-gnl|WGS:VWZK|BARMAR_R04543_mrna 4057423 6 3270 3371 Baryphthengus martii 176943 AAG|GTGGGCCGGG...GTTACCCTGCCC/GAGGGGGTTACC...CTCAG|GCT 1 1 62.787
21001429 GT-AG 0 1.000000099473604e-05 544 rna-gnl|WGS:VWZK|BARMAR_R04543_mrna 4057423 7 3555 4098 Baryphthengus martii 176943 CCA|GTGAGTCCCT...CTGTCCTGAGCA/CCTGTCCTGAGC...CGCAG|TCA 1 1 78.924

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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]);