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 = 28258299

✎ 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
156963680 GT-AG 0 0.0053887468747806 234 rna-XM_027181564.1 28258299 1 514510 514743 Pocillopora damicornis 46731 GAG|GTATGTCTTT...CCAGCCTTAAAT/GCTGTTTTAATT...TGCAG|ATC 0 1 33.69
156963681 GT-AG 0 1.000000099473604e-05 1882 rna-XM_027181564.1 28258299 2 514992 516873 Pocillopora damicornis 46731 CAG|GTAAAACTTT...CCTCTTTTGAAC/CCTCTTTTGAAC...TTTAG|TCT 2 1 55.793
156963682 GT-AG 0 0.0135217826448927 457 rna-XM_027181564.1 28258299 3 517051 517507 Pocillopora damicornis 46731 CAG|GTATATCTCT...TTTATTTTAATG/TTTATTTTAATG...TTAAG|TTT 2 1 71.569
156963683 GT-AG 0 1.000000099473604e-05 224 rna-XM_027181564.1 28258299 4 517632 517855 Pocillopora damicornis 46731 CAT|GTGAGTGCTG...GGTGTTTTACTA/GGGTGTTTTACT...TTCAG|AAA 0 1 82.62
156963684 GT-AG 0 0.000199069036874 221 rna-XM_027181564.1 28258299 5 517982 518202 Pocillopora damicornis 46731 GAG|GTAGGCCTTT...AGAACTTTAATT/TTGGTTCTTATG...TGGAG|GTC 0 1 93.85

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]);