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)

6 rows where transcript_id = 34491684

✎ 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
193789931 GT-AG 0 1.000000099473604e-05 59 rna-gnl|WGS:QUVV|SYNPS1DRAFT_mRNA6770 34491684 1 22710 22768 Syncephalis pseudoplumigaleata 1712513 CGT|GTCGTATCAG...TGTCATCTAGCG/TAGCGACTAATG...GATAG|CTC 0 1 20.402
193789932 GT-AG 0 1.000000099473604e-05 56 rna-gnl|WGS:QUVV|SYNPS1DRAFT_mRNA6770 34491684 2 22878 22933 Syncephalis pseudoplumigaleata 1712513 TGG|GTGAGCGGTG...GATGGCTAATCT/CGATGGCTAATC...TCTAG|ACC 1 1 30.843
193789933 GT-AG 0 1.000000099473604e-05 71 rna-gnl|WGS:QUVV|SYNPS1DRAFT_mRNA6770 34491684 3 23025 23095 Syncephalis pseudoplumigaleata 1712513 TCG|GTAAGCAGCA...CGCATCTCATAT/GCGCATCTCATA...CATAG|CAA 2 1 39.559
193789934 GT-AG 0 0.0006752407369876 87 rna-gnl|WGS:QUVV|SYNPS1DRAFT_mRNA6770 34491684 4 23198 23284 Syncephalis pseudoplumigaleata 1712513 GGA|GTATGTGGAT...GCATGCTTAGCC/GCAGTATTCACG...GATAG|CGA 2 1 49.33
193789935 GT-AG 0 0.0503239388022169 38 rna-gnl|WGS:QUVV|SYNPS1DRAFT_mRNA6770 34491684 6 23457 23494 Syncephalis pseudoplumigaleata 1712513 TA|GTTGGTGCTT...TGTGTGTGGCCT/GTGTGTGTGGCC...TCTAG|GAC 0 1 63.506
193789936 GT-AG 0 0.0001083294471473 62 rna-gnl|WGS:QUVV|SYNPS1DRAFT_mRNA6770 34491684 7 23571 23632 Syncephalis pseudoplumigaleata 1712513 TTG|GTAGGCATCA...TGCTCATTGAAT/CTCATGCTCATT...TGTAG|ACA 1 1 70.785

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]);