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)

8 rows where transcript_id = 31249552

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
174208860 GT-AG 0 1.000000099473604e-05 65 rna-FME351_LOCUS9 31249552 1 43030 43094 Rotaria socialis 392032 ATG|GTAAAGACAA...GTTTATTTATTC/TGTTTATTTATT...GGTAG|ACT 0 1 0.288
174208861 GT-AG 0 5.541360647900961e-05 57 rna-FME351_LOCUS9 31249552 2 43137 43193 Rotaria socialis 392032 ATT|GTAAGTTTAC...GAAATATTATTC/TGAAATATTATT...TTTAG|CAC 0 1 4.323
174208862 GT-AG 0 0.0007816687743581 61 rna-FME351_LOCUS9 31249552 3 43310 43370 Rotaria socialis 392032 AGG|GTAAACATTT...CTTTTTTTAGAT/TCATAATTAATC...TAAAG|ACA 2 1 15.466
174208863 GT-AG 0 3.379532386973063e-05 293 rna-FME351_LOCUS9 31249552 4 43562 43854 Rotaria socialis 392032 CGG|GTAAGTTGCA...GTGTTTTTAATT/GTGTTTTTAATT...TTTAG|TTA 1 1 33.814
174208864 GT-AG 0 1.1382671069058751e-05 49 rna-FME351_LOCUS9 31249552 5 43945 43993 Rotaria socialis 392032 CTG|GTATGAGTGT...AAACTTTTGAAA/TTGAAACTGATT...TATAG|GCG 1 1 42.459
174208865 GT-AG 0 1.000000099473604e-05 62 rna-FME351_LOCUS9 31249552 6 44038 44099 Rotaria socialis 392032 CCT|GTAAGTAAAT...TTTCCCTTATGA/TTCTTTTTCACT...TCTAG|CCG 0 1 46.686
174208866 GT-AG 0 1.000000099473604e-05 62 rna-FME351_LOCUS9 31249552 7 44237 44298 Rotaria socialis 392032 GAA|GTAAATAGAG...ATTCACTTGAAT/GAAAAACTTACT...TTCAG|AGA 2 1 59.846
174208867 GT-AG 0 1.2502568178476492e-05 60 rna-FME351_LOCUS9 31249552 8 44420 44479 Rotaria socialis 392032 CAA|GTAATATATC...ATTACTTTATTT/ATTCATTTCATT...TTAAG|GAT 0 1 71.47

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]);