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 = 29769686

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, 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
166400133 GT-AG 0 1.000000099473604e-05 4027 rna-XM_037457687.1 29769686 3 20364151 20368177 Pungitius pungitius 134920 AAG|GTCAGTGACG...TGCTCCTGAAAA/GTGCTCCTGAAA...TCCAG|AAA 0 1 83.676
166400134 GT-AG 0 1.000000099473604e-05 5160 rna-XM_037457687.1 29769686 4 20368320 20373479 Pungitius pungitius 134920 CAG|GTAAGCATCA...ATTCCTCTCTCT/CTGATACTGACA...CCTAG|GGT 1 1 86.105
166400135 GT-AG 0 0.0006276386555425 899 rna-XM_037457687.1 29769686 5 20373558 20374456 Pungitius pungitius 134920 AAG|GTACGTTACG...GTGTTTTTAACT/GTGTTTTTAACT...ACCAG|ACC 1 1 87.44
166400136 GT-AG 0 1.2177032732804864e-05 1388 rna-XM_037457687.1 29769686 6 20374589 20375976 Pungitius pungitius 134920 TCA|GTAAGTAAAG...CCTCCTCTAACA/CCTCCTCTAACA...TTCAG|AGA 1 1 89.699
166400137 GT-AG 0 1.000000099473604e-05 324 rna-XM_037457687.1 29769686 7 20376083 20376406 Pungitius pungitius 134920 CAA|GTGAGTGAGT...ACCTCTTTGTTT/ATTTAATTCACC...CGCAG|GGT 2 1 91.513
166411353 GT-AG 0 1.000000099473604e-05 2749 rna-XM_037457687.1 29769686 1 20328055 20330803 Pungitius pungitius 134920 ACG|GTAAGTAAGC...CTCTCCCTCTCT/CTCTCTCTCTCT...AATAG|GAG   0 7.666
166411354 GT-AG 0 1.000000099473604e-05 28788 rna-XM_037457687.1 29769686 2 20331511 20360298 Pungitius pungitius 134920 GAG|GTACGTCGAC...CCCTCTTTCTCT/TGAATATTAAAT...TACAG|GGC   0 19.764

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]);