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 = 34009239

✎ 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
190420388 GT-AG 0 1.000000099473604e-05 8826 rna-XM_035362696.1 34009239 1 27371 36196 Stegodyphus dumicola 202533 CAG|GTAATGTAAA...AAGGTATTAATT/AAGGTATTAATT...TCTAG|GGA 0 1 15.094
190420389 GT-AG 0 0.032338670261348 88 rna-XM_035362696.1 34009239 2 36310 36397 Stegodyphus dumicola 202533 CAA|GTATTTATTC...TTATTTTTGAAA/GTTTTATTTATT...TGTAG|GTA 2 1 25.247
190420390 GT-AG 0 1.000000099473604e-05 11886 rna-XM_035362696.1 34009239 3 36492 48377 Stegodyphus dumicola 202533 GAG|GTAAAGTACA...AGTTTCCTATTT/TATGTGTTTATC...TACAG|GTA 0 1 33.693
190420391 GT-AG 0 6.088737316780337e-05 15825 rna-XM_035362696.1 34009239 4 48633 64457 Stegodyphus dumicola 202533 ATT|GTAAGTAATT...CATCTTTTAGTC/GCATCTTTTAGT...TCAAG|AGA 0 1 56.604
190420392 GT-AG 0 1.000000099473604e-05 153 rna-XM_035362696.1 34009239 5 64528 64680 Stegodyphus dumicola 202533 AAA|GTAAGATTGA...TTCACATTAATT/TAATTATTCACA...TGTAG|CTG 1 1 62.893
190420393 GT-AG 0 1.0235814067117386e-05 10042 rna-XM_035362696.1 34009239 6 64767 74808 Stegodyphus dumicola 202533 AAG|GTATGGATGT...TCTTTTTAAAAT/TTTAAAATTATT...TTTAG|CCA 0 1 70.62
190420394 GT-AG 0 1.816419184154412e-05 2387 rna-XM_035362696.1 34009239 7 74958 77344 Stegodyphus dumicola 202533 GGG|GTAAGTTCTA...TTATCTTCAATT/ATTATCTTCAAT...TGTAG|AAT 2 1 84.007
190420395 GT-AG 0 0.0001347897942084 10367 rna-XM_035362696.1 34009239 8 77482 87848 Stegodyphus dumicola 202533 ATG|GTAAATTTTT...TTTTTTTTTTTT/TAAATTATGATA...TTCAG|AGA 1 1 96.316

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]);