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 = 26505162

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
146835306 GT-AG 0 0.0203703087090123 92 Pavag01G335700.1.v3.1 26505162 1 39841904 39841995 Paspalum vaginatum 158149 AAG|GTGCCCTTCT...AATGCATTGATG/TTTCAGTTAACT...ATCAG|GCT 0 1 67.179
146835307 GT-AG 0 0.3441032605290612 80 Pavag01G335700.1.v3.1 26505162 2 39842205 39842284 Paspalum vaginatum 158149 CCA|GTATGTTTCT...TTAATCTTGAAG/GAAGATTTCACT...TGCAG|GCC 2 1 70.24
146835308 GT-AG 0 1.7377003857858477e-05 882 Pavag01G335700.1.v3.1 26505162 3 39842433 39843314 Paspalum vaginatum 158149 CAG|GTAGATTGCT...GCTATTTTAAAT/AAATTTCTGACC...GTTAG|GTT 0 1 72.408
146835309 GT-AG 0 1.129083952807144e-05 71 Pavag01G335700.1.v3.1 26505162 4 39843502 39843572 Paspalum vaginatum 158149 TTG|GTAAGCACTT...TTTATTGTGACT/ATGATGTTTATT...CTCAG|GGG 1 1 75.146
146835310 GT-AG 0 4.5699197005181134e-05 88 Pavag01G335700.1.v3.1 26505162 5 39843891 39843978 Paspalum vaginatum 158149 GAG|GTATGATCCT...CTATTCATAGTG/ATAGTGTTTATT...AGCAG|GGG 1 1 79.804
146835311 GT-AG 0 0.0188723860078157 144 Pavag01G335700.1.v3.1 26505162 6 39844665 39844808 Paspalum vaginatum 158149 CAG|GTATGCTTAA...GTTTTCTTCTCT/ACTCTTCTCACT...TCCAG|GCA 0 1 89.851

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]);