home / WtMTA

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 = 34480557

✎ 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
193751437 GT-AG 0 0.0001063158751238 103 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482962 34480557 1 2822630 2822732 Syncephalastrum racemosum 13706 CAA|GTAAGCTGAT...GCCTCTCTAACC/GCCTCTCTAACC...TACAG|CCA 0 1 15.226
193751438 GT-AG 0 0.0006810980790253 73 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482962 34480557 2 2822400 2822472 Syncephalastrum racemosum 13706 CCA|GTAAGTTGCC...CCCGTCTTAATT/CCCGTCTTAATT...TGAAG|TCG 1 1 20.144
193751439 GT-AG 0 1.000000099473604e-05 58 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482962 34480557 3 2821643 2821700 Syncephalastrum racemosum 13706 TAG|GTAAGTCGCA...TTGTTTTTGATC/TTGTTTTTGATC...GGTAG|GCC 1 1 42.043
193751440 GT-AG 0 1.000000099473604e-05 69 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482962 34480557 4 2820656 2820724 Syncephalastrum racemosum 13706 CAG|GTAAATAAAG...CACGCTTTCATC/CACGCTTTCATC...TTTAG|GCG 1 1 70.802
193751441 GT-AG 0 1.000000099473604e-05 55 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482962 34480557 5 2820104 2820158 Syncephalastrum racemosum 13706 GAG|GTGAGTCGAC...CTGTCTTCAGCG/GCTGTCTTCAGC...TGTAG|AAC 0 1 86.372
193751442 GT-AG 0 1.000000099473604e-05 65 rna-gnl|WGS:MCGN|BCR43DRAFT_mRNA482962 34480557 6 2819818 2819882 Syncephalastrum racemosum 13706 CGG|GTAAGGGACT...CAATTCTTAAAT/CGTTATATCATT...ATCAG|GAT 2 1 93.296

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]);
Powered by Datasette · Queries took 24.891ms · Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)