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 = 4057433

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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
21001511 GT-AG 0 1.000000099473604e-05 36111 rna-gnl|WGS:VWZK|BARMAR_R11328_mrna 4057433 1 294497 330607 Baryphthengus martii 176943 GGG|GTAAGAGTAT...TTTCTCTTTTTT/TGTTTATTCATA...AATAG|AAT 2 1 11.026
21001512 GT-AG 0 1.000000099473604e-05 6473 rna-gnl|WGS:VWZK|BARMAR_R11328_mrna 4057433 2 330675 337147 Baryphthengus martii 176943 AAG|GTAAAAAAAA...TTTTTTTCGACA/AAGTAACTCACC...TACAG|TTT 0 1 19.615
21001513 GT-AG 0 0.0026340518965426 941 rna-gnl|WGS:VWZK|BARMAR_R11328_mrna 4057433 3 337208 338148 Baryphthengus martii 176943 CTG|GTATGTATGG...TCATTTTTAATT/TTAATTTTAATT...TCTAG|GCG 0 1 27.308
21001514 GT-AG 0 1.000000099473604e-05 3857 rna-gnl|WGS:VWZK|BARMAR_R11328_mrna 4057433 4 338257 342113 Baryphthengus martii 176943 GAG|GTAGGAGAAT...TTTTGCTTAACT/TATTGTTTTATT...TGTAG|CAA 0 1 41.154
21001515 GT-AG 0 0.0001151479938023 6915 rna-gnl|WGS:VWZK|BARMAR_R11328_mrna 4057433 5 342279 349193 Baryphthengus martii 176943 ACT|GTAAGTTCCT...CTTTTTTTTTTT/CTTTTTTTTTTT...TTTAG|GAT 0 1 62.308
21001516 GT-AG 0 1.000000099473604e-05 812 rna-gnl|WGS:VWZK|BARMAR_R11328_mrna 4057433 6 349376 350187 Baryphthengus martii 176943 AGG|GTAAAACATT...TATTGTTTAAAA/TATTGTTTAAAA...TACAG|ATT 2 1 85.641
21001517 GT-AG 0 1.2879801585482217e-05 2530 rna-gnl|WGS:VWZK|BARMAR_R11328_mrna 4057433 7 350241 352770 Baryphthengus martii 176943 CAG|GTAATTTTCC...ATATTTTTTTCT/AAAATACTGAAT...TCCAG|GTG 1 1 92.436

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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]);