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 = 19748969

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
105761803 GT-AG 0 1.000000099473604e-05 1074 rna-XM_007445565.1 19748969 2 2169039 2170112 Lipotes vexillifer 118797 CAG|GTAAAAAGGA...GTTATTTTATTT/TGTTATTTTATT...TTTAG|AAA 0 1 20.489
105761804 GT-AG 0 0.0021479472887418 2008 rna-XM_007445565.1 19748969 3 2166935 2168942 Lipotes vexillifer 118797 CAG|GTACTTCTTT...CTTGTCTTGATT/TTGATTTTAATC...ATTAG|ATT 0 1 29.511
105761805 GT-AG 0 1.1188751100725665e-05 3151 rna-XM_007445565.1 19748969 4 2163621 2166771 Lipotes vexillifer 118797 AAG|GTATGACTCA...AATGTATTGAAA/AATGTATTGAAA...TTCAG|TTG 1 1 44.831
105761806 GT-AG 0 8.136787288831586e-05 86 rna-XM_007445565.1 19748969 5 2163428 2163513 Lipotes vexillifer 118797 CAG|GTAACATGGT...TATTTCTGAACG/ACTTTTCTCATC...CCCAG|GTT 0 1 54.887
105761807 GT-AG 0 0.0086237628485826 1820 rna-XM_007445565.1 19748969 6 2161421 2163240 Lipotes vexillifer 118797 GAG|GTATTCCCAG...TAATTTTTAAAA/TAAAAATTTACT...TCTAG|TTG 1 1 72.462
105761808 GT-AG 0 1.000000099473604e-05 454 rna-XM_007445565.1 19748969 7 2160860 2161313 Lipotes vexillifer 118797 CAG|GTAAAGTCAT...TTTATTTTGATT/TTTATTTTGATT...CTTAG|GTA 0 1 82.519
105761830 GT-AG 0 1.000000099473604e-05 8488 rna-XM_007445565.1 19748969 1 2170203 2178690 Lipotes vexillifer 118797 CGG|GTGAGTTGGT...CTATTTTTAAAG/AAAGTATTTACT...ATTAG|GGA   0 12.594

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]);