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 = 13705595

✎ 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
72997595 GT-AG 0 1.000000099473604e-05 1412 rna-XM_016188487.1 13705595 1 2027676 2029087 Erinaceus europaeus 9365 AAG|GTGATATGCC...TGCTTCTTCTTT/CATCTTGTCACA...CCCAG|GAG 1 1 11.93
72997596 GT-AG 0 5.931820215361408e-05 2522 rna-XM_016188487.1 13705595 2 2025065 2027586 Erinaceus europaeus 9365 CAG|GTAACTTGAA...ACCTCCCCATCT/CACCTCCCCATC...TCTAG|GGT 0 1 19.737
72997597 GT-AG 0 3.0442712881090948e-05 862 rna-XM_016188487.1 13705595 3 2024114 2024975 Erinaceus europaeus 9365 CAG|GTATGGTGAG...ACACTCTGGACT/TGGGCTCTCACA...TCAAG|ATT 2 1 27.544
72997598 GT-AG 0 1.000000099473604e-05 2139 rna-XM_016188487.1 13705595 4 2021910 2024048 Erinaceus europaeus 9365 GTG|GTGAGTGGAC...CCTTTCTTGGCC/AGGCTGCTGACT...CCCAG|ATA 1 1 33.246
72997599 GT-AG 0 1.000000099473604e-05 249 rna-XM_016188487.1 13705595 5 2021496 2021744 Erinaceus europaeus 9365 CAG|GTTTGGCCGC...GCCACCTGACAC/CTGTGGCTGACC...TGCAG|GTG 1 1 47.719
72997600 GT-AG 0 0.0001804560617388 1232 rna-XM_016188487.1 13705595 6 2019904 2021135 Erinaceus europaeus 9365 CAG|GTACCAGGAC...TTTTCCTTTTCT/CTTAGATTTAGT...CTCAG|GTT 1 1 79.298

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]);