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 = 24419533

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
133392315 GT-AG 0 1.000000099473604e-05 11571 rna-XM_014925650.1 24419533 1 270152 281722 Octopus bimaculoides 37653 CAG|GTAGGACTAT...TACTTTTTCATT/TACTTTTTCATT...TTCAG|GTT 1 1 6.008
133392316 GT-AG 0 1.000000099473604e-05 1789 rna-XM_014925650.1 24419533 2 268157 269945 Octopus bimaculoides 37653 GAG|GTAAAGTTTT...TAATTTTTATAT/TTTATATTCATT...ATTAG|TGG 0 1 13.892
133392317 GT-AG 0 1.000000099473604e-05 8650 rna-XM_014925650.1 24419533 3 259276 267925 Octopus bimaculoides 37653 CCG|GTAAGAATTA...TGTTCCTTTACA/ACGTCACTTATC...CCTAG|GGT 0 1 22.732
133392318 GT-AG 0 1.3424449466768689e-05 1078 rna-XM_014925650.1 24419533 4 257995 259072 Octopus bimaculoides 37653 ATG|GTAAGTTCTC...AATCCCTTGCCT/TTGCCTCTCACT...TTTAG|GTC 2 1 30.501
133392319 TT-TT 0 5.993231335952554e-05 14919 rna-XM_014925650.1 24419533 5 241623 256541 Octopus bimaculoides 37653 TAT|TTGTGGTAAG...AAATTCTTAACG/AAAATTCTTAAC...GGTTT|CAC 0 1 86.108
133392320 GT-AG 0 0.3548754641197134 777 rna-XM_014925650.1 24419533 6 240793 241569 Octopus bimaculoides 37653 TCG|GTATCGGTGA...ATATTTTTAACC/ATATTTTTAACC...TTCAG|AAA 2 1 88.136
133392321 GT-AG 0 1.000000099473604e-05 2920 rna-XM_014925650.1 24419533 7 237800 240719 Octopus bimaculoides 37653 CTG|GTAAGTTAAA...GTTATTTTGACT/GTTATTTTGACT...TACAG|GCC 0 1 90.93

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]);