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 = 5982010

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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
30725023 GT-AG 0 1.000000099473604e-05 407 rna-XM_025868191.1 5982010 2 1379638 1380044 Callorhinus ursinus 34884 TGG|GTGAGAGATG...TTTCTTTTCACC/TTTCTTTTCACC...GTTAG|AGG 0 1 15.23
30725024 GT-AG 0 1.000000099473604e-05 362 rna-XM_025868191.1 5982010 3 1380062 1380423 Callorhinus ursinus 34884 CAG|GTAAGTATGG...TTTCCTCTATCA/AAGGTTATAAAT...AACAG|GTA 2 1 17.237
30725025 GT-AG 0 0.0001674302564761 1751 rna-XM_025868191.1 5982010 4 1380488 1382238 Callorhinus ursinus 34884 CTG|GTAACAGTCT...GAATCTTTATTT/TCTTTATTTACT...TGTAG|ATT 0 1 24.793
30725026 GT-AG 0 1.000000099473604e-05 516 rna-XM_025868191.1 5982010 5 1382338 1382853 Callorhinus ursinus 34884 AAG|GTAAATGGTC...AGAGCTGTGATG/TTTTGTTGGATT...TTCAG|TTG 0 1 36.482
30725027 GT-AG 0 1.000000099473604e-05 410 rna-XM_025868191.1 5982010 6 1382989 1383398 Callorhinus ursinus 34884 GAA|GTAAGGAGCC...TTGTACTTAAAA/CAAGTGTTCATT...ATTAG|GGT 0 1 52.42
30725028 GT-AG 0 1.000000099473604e-05 1377 rna-XM_025868191.1 5982010 7 1383483 1384859 Callorhinus ursinus 34884 CAG|GTAAGTCCTT...GTGTGTTTAATT/TTGTATTTTATT...TCTAG|CTG 0 1 62.338
30725113 GT-AG 0 1.000000099473604e-05 3694 rna-XM_025868191.1 5982010 1 1375453 1379146 Callorhinus ursinus 34884 CAG|GTAAGGAGAA...TCACTTTTAACC/CCTCTTTTCATT...TCTAG|GGC   0 4.959
30725114 GT-AG 0 0.0007296095647241 780 rna-XM_025868191.1 5982010 8 1384966 1385745 Callorhinus ursinus 34884 AAG|GTATGTTCAT...TTTTTCTTTACT/TTTTTCTTTACT...TTTAG|GAC   0 74.852

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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]);