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)

5 rows where transcript_id = 11132748

✎ View and edit SQL

This data as json, CSV (advanced)

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
61608259 GT-AG 0 0.0006359768053535 168 rna-XM_027349155.1 11132748 1 1621046 1621213 Dermatophagoides pteronyssinus 6956 GGA|GTAAGTTATT...CTGTTTTTAATT/CTGTTTTTAATT...ACTAG|TAA 2 1 3.369
61608260 GT-AG 0 1.000000099473604e-05 72 rna-XM_027349155.1 11132748 2 1621327 1621398 Dermatophagoides pteronyssinus 6956 AAG|GTTTGAATTT...TATTCCGTAATT/CGTAATTTGAAT...TGTAG|AAG 1 1 5.115
61608261 GT-AG 0 1.000000099473604e-05 54 rna-XM_027349155.1 11132748 3 1626436 1626489 Dermatophagoides pteronyssinus 6956 AAG|GTAAGTTGAA...TAGTTATTATTT/CTGTGTGTCATT...TTTAG|ATT 1 1 82.955
61608262 GT-AG 0 8.343822026328356e-05 60 rna-XM_027349155.1 11132748 4 1626595 1626654 Dermatophagoides pteronyssinus 6956 AAG|GTTTGTTATA...TTTTTGTTAATA/ATTTTTTTCATT...TACAG|CAA 1 1 84.577
61608263 GT-AG 0 0.0352386901199313 58 rna-XM_027349155.1 11132748 5 1627044 1627101 Dermatophagoides pteronyssinus 6956 CAG|GTAACTTTTA...CTTTTTTTGAAT/GTATTTTTCATT...GACAG|AAA 0 1 90.589

Advanced export

JSON shape: default, array, newline-delimited, object

CSV options: 

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]);