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 = 20745255

✎ 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
111172198 GT-AG 0 1.000000099473604e-05 676 rna-XM_044650768.1 20745255 1 2495089 2495764 Mangifera indica 29780 AAG|GTGAGACCAT...CGCATTTTGACT/TTTTGACTTATT...TTCAG|GTT 0 1 44.361
111172199 GT-AG 0 0.6301349575971427 106 rna-XM_044650768.1 20745255 2 2495838 2495943 Mangifera indica 29780 TAC|GTATGCTAAA...TCTGCTTTAATG/TAGAAATTCATA...CCCAG|GTT 1 1 46.648
111172200 GT-AG 0 0.0007312249770883 534 rna-XM_044650768.1 20745255 3 2496066 2496599 Mangifera indica 29780 AAG|GTGTTCCTTC...AAGTTCTTAGAT/ATTTTTTTAAAG...GTCAG|GGT 0 1 50.47
111172201 GT-AG 0 1.000000099473604e-05 92 rna-XM_044650768.1 20745255 4 2496882 2496973 Mangifera indica 29780 AGG|GTGAGTAATC...TTTTTTTTGAAT/TTTTTTTTGAAT...AAAAG|GAT 0 1 59.305
111172202 GT-AG 0 1.000000099473604e-05 308 rna-XM_044650768.1 20745255 5 2497352 2497659 Mangifera indica 29780 GAG|GTAAGGAAGG...TAATTTTTATAT/TTCATTCTCATA...TTCAG|GTT 0 1 71.147
111172203 GT-AG 0 5.699099243088525e-05 499 rna-XM_044650768.1 20745255 6 2497770 2498268 Mangifera indica 29780 CAG|GTTTTTATTT...GAGACTTTACAT/CAGACACTAACA...TTCAG|GTA 2 1 74.593
111172204 GT-AG 0 0.0020739049817932 190 rna-XM_044650768.1 20745255 7 2498498 2498687 Mangifera indica 29780 ATG|GTATTTAATC...AATATCTTACTA/AAATATCTTACT...TGCAG|GTC 0 1 81.767

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]);