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 = 24003282

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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
130620887 GT-AG 0 6.325347707579612e-05 4452 rna-XM_026054105.1 24003282 3 9288599 9293050 Nothoprocta perdicaria 30464 AAG|GTAACATGGT...GTGATGTTAATT/GTGATGTTAATT...TGCAG|CTG 2 1 47.715
130620888 GT-AG 0 1.000000099473604e-05 810 rna-XM_026054105.1 24003282 4 9287614 9288423 Nothoprocta perdicaria 30464 AAT|GTAAGGGAGA...CAGCCCCTACCC/CCCCAACCCACT...TACAG|AGC 0 1 52.419
130620889 GT-AG 0 0.0060053285208424 420 rna-XM_026054105.1 24003282 5 9286989 9287408 Nothoprocta perdicaria 30464 ATG|GTAGCCACCT...GACCCTGTAATG/CCTGTAATGATT...CTCAG|GTC 1 1 57.93
130620890 GT-AG 0 1.000000099473604e-05 1388 rna-XM_026054105.1 24003282 6 9284978 9286365 Nothoprocta perdicaria 30464 CAG|GTACAAATGC...CTCTCCTGAGCT/CCTGAGCTAACC...TGCAG|AGT 0 1 74.677
130620891 GT-AG 0 1.000000099473604e-05 910 rna-XM_026054105.1 24003282 7 9283922 9284831 Nothoprocta perdicaria 30464 CAG|GTGAGAAGCA...TTCTTCTTAAAT/CACCATTTCATT...TGCAG|AAT 2 1 78.602
130623621 GT-AG 0 1.000000099473604e-05 8956 rna-XM_026054105.1 24003282 1 9296571 9305526 Nothoprocta perdicaria 30464 AGG|GTAAGAGATC...TGTTTCCTACTC/TATCATCTCATT...AACAG|ATC   0 2.903
130623622 GT-AG 0 1.000000099473604e-05 1687 rna-XM_026054105.1 24003282 2 9294767 9296453 Nothoprocta perdicaria 30464 TGG|GTGAGAAGTG...CTTTCCTTCCAT/CAGTAACTCATC...CACAG|GTC   0 6.048

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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]);