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 = 26834559

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
148958005 GA-CA 0 0.0049763955425105 88 rna-XM_027358466.1 26834559 1 239402 239489 Penaeus vannamei 6689 CCA|GATGCCAGCC...GCCACCTCAGCC/TGCCACCTCAGC...GTCCA|AGT 2 1 73.2
148958006 GT-AG 0 1.000000099473604e-05 9598 rna-XM_027358466.1 26834559 2 240617 250214 Penaeus vannamei 6689 CAG|GTGCGTCCTC...TAATTCTGGACT/TCTGGACTAATG...AACAG|GAG 1 1 90.73
148958007 GT-AG 0 0.0014236785321725 619 rna-XM_027358466.1 26834559 3 250293 250911 Penaeus vannamei 6689 AAG|GTATGTTAAA...TTTTCCTTTTCT/CTGTCACTTATC...TTCAG|TCA 1 1 91.943
148958008 GT-AG 0 0.0027740888936966 278 rna-XM_027358466.1 26834559 4 250981 251258 Penaeus vannamei 6689 AAG|GTATGTCTTG...ATTATTTTAATT/ATTATTTTAATT...TGCAG|TTG 1 1 93.016
148958009 GT-AG 0 1.000000099473604e-05 1094 rna-XM_027358466.1 26834559 5 251332 252425 Penaeus vannamei 6689 AAA|GTAAGTCCCT...AACATCTAACTC/CAACATCTAACT...CCCAG|TCC 2 1 94.152
148958010 GT-AG 0 1.000000099473604e-05 2366 rna-XM_027358466.1 26834559 6 252529 254894 Penaeus vannamei 6689 AAG|GTAGAGTTGG...TAACCTTTCACT/TCACTTCTCACC...AACAG|GGA 0 1 95.754
148958011 GT-AG 0 1.0421922678560231e-05 226 rna-XM_027358466.1 26834559 7 255047 255272 Penaeus vannamei 6689 AGA|GTAAGTACTA...AATTTCTTGTTG/TAAATTTTCAAT...TGCAG|TGA 2 1 98.118

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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]);