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)

5 rows where transcript_id = 26505198

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
146836039 GT-AG 0 9.785342906639774e-05 1432 Pavag01G147100.1.v3.1 26505198 2 11362414 11363845 Paspalum vaginatum 158149 CAG|GTAAATTATT...TTTCTTTTAGTT/TTATTTTTGAAT...TGCAG|ACA 1 1 11.798
146836040 GT-AG 0 1.000000099473604e-05 77 Pavag01G147100.1.v3.1 26505198 3 11364194 11364270 Paspalum vaginatum 158149 AAG|GTAAGCCCAC...CATGTCATATAT/AAAAATGTAATC...TGCAG|ATG 1 1 18.63
146836041 GT-AG 0 0.0022756709686759 153 Pavag01G147100.1.v3.1 26505198 4 11365593 11365745 Paspalum vaginatum 158149 CAG|GTATGTCTCG...AACTTCTTAGTA/TTAGTAATAACT...TTCAG|GTT 0 1 44.582
146836042 GT-AG 0 0.0001193028482671 227 Pavag01G147100.1.v3.1 26505198 5 11367522 11367748 Paspalum vaginatum 158149 GAG|GTAAACTATT...AACTCCTAAATA/CTGAAATTTATA...TTTAG|GAA 0 1 79.446
146855259 GT-AG 0 0.0057306699666248 1262 Pavag01G147100.1.v3.1 26505198 1 11360919 11362180 Paspalum vaginatum 158149 CTG|GTATGCATCC...CGTTTCTTCATG/CGTTTCTTCATG...TGTAG|GTA   0 9.776

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]);