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)

8 rows where transcript_id = 30001220

✎ 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
168078072 GT-AG 0 0.0002457454488726 107 rna-XM_009364966.2 30001220 1 15783 15889 Pyrus x bretschneideri 225117 CCT|GTAAGTCTGT...TAATCCCTAACT/TAATCCCTAACT...TGCAG|CTG 1 1 5.747
168078073 GT-AG 0 0.0012746310989434 89 rna-XM_009364966.2 30001220 2 15656 15744 Pyrus x bretschneideri 225117 TTT|GTAAGTTGTT...ATGTCTTTGAAT/ATGTCTTTGAAT...CACAG|CCT 0 1 7.646
168078074 GT-AG 0 0.0001855358320049 113 rna-XM_009364966.2 30001220 3 15495 15607 Pyrus x bretschneideri 225117 CAG|GTTTATCTCT...GGATCTTTATTT/CGGATCTTTATT...CATAG|GAG 0 1 10.045
168078075 GT-AG 0 1.2479937175746374e-05 108 rna-XM_009364966.2 30001220 4 15263 15370 Pyrus x bretschneideri 225117 AAG|GTTATCATCA...TTCTTTTTAATT/TTCTTTTTAATT...CTTAG|ATG 1 1 16.242
168078076 GT-AG 0 0.0001337925404482 230 rna-XM_009364966.2 30001220 5 14836 15065 Pyrus x bretschneideri 225117 AGG|GTATGGATTC...TGCTTCTTGTTT/TTGTTTCTCTCT...TTTAG|GAA 0 1 26.087
168078077 GT-AG 0 0.065993857711836 207 rna-XM_009364966.2 30001220 6 14357 14563 Pyrus x bretschneideri 225117 GAA|GTATGTCTTC...TTTTTTTTAAAT/TTTTTTTTAAAT...TACAG|CGC 2 1 39.68
168078078 GT-AG 0 1.000000099473604e-05 178 rna-XM_009364966.2 30001220 7 13821 13998 Pyrus x bretschneideri 225117 AAG|GTGATGTAGA...ACATCTTTACCT/CTTTACCTGACT...GACAG|GAC 0 1 57.571
168078079 GT-AG 0 1.000000099473604e-05 359 rna-XM_009364966.2 30001220 9 12887 13245 Pyrus x bretschneideri 225117 CTG|GTAAGAAAAA...TGTTTCCTAGTC/CTTGAATTAAAT...CACAG|AAT 0 1 86.207

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]);