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 = 9887135

✎ 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
54167367 GT-AG 0 0.0001040809295226 1724 rna-XM_039339752.1 9887135 2 4647323 4649046 Crotalus tigris 88082 TAT|GTAAGTTTTT...ATAACTTTGTTT/ACTATGTTTATT...TGAAG|GAC 0 1 30.992
54167368 GT-AG 0 1.000000099473604e-05 1477 rna-XM_039339752.1 9887135 3 4649117 4650593 Crotalus tigris 88082 AAG|GTAAAACTAA...AATGCATTATTT/GTAAAGCTAAAT...AACAG|AAA 1 1 37.138
54167369 GT-AG 0 1.000000099473604e-05 1726 rna-XM_039339752.1 9887135 4 4650746 4652471 Crotalus tigris 88082 AAG|GTTTGTCCTG...ATATACTAAAAT/GGTATACTAATG...TCAAG|GTA 0 1 50.483
54167370 GT-AG 0 0.0002801771327901 837 rna-XM_039339752.1 9887135 5 4652631 4653467 Crotalus tigris 88082 CAG|GTATTTAACT...AAAACTTTACTA/TTGTTTGTGACA...AATAG|GGC 0 1 64.442
54167371 GT-AG 0 1.000000099473604e-05 583 rna-XM_039339752.1 9887135 6 4653646 4654228 Crotalus tigris 88082 CAG|GTAATTATTT...TTGTTCCTAATA/TTGTTCCTAATA...TGTAG|GTG 1 1 80.07
54167372 GT-AG 0 1.000000099473604e-05 2670 rna-XM_039339752.1 9887135 7 4654446 4657115 Crotalus tigris 88082 CAA|GTAAGTATGC...ATCTCTTTCTTT/ACATGTCTAAAA...TGCAG|GTC 2 1 99.122
54167520 GT-AG 0 1.000000099473604e-05 2352 rna-XM_039339752.1 9887135 1 4644776 4647127 Crotalus tigris 88082 AAG|GTAAGGCGGG...AAATTTTAAGCA/ACGCATCTAACT...ATCAG|ATG   0 13.872

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]);