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 = 34880184

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Suggested facets: dinucleotide_pair, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
196361925 GT-AG 0 1.000000099473604e-05 2414 rna-XM_026655424.1 34880184 1 407708 410121 Terrapene carolina 158814 CAG|GTGGGAGAGT...CTGCCCCTGACA/CTGCCCCTGACA...ACTAG|TGG 1 1 1.954
196361926 GT-AG 0 1.000000099473604e-05 2051 rna-XM_026655424.1 34880184 2 405508 407558 Terrapene carolina 158814 AAG|GTGAGCCCTG...ATGTCAATAACG/GTTTATGTCAAT...TACAG|GTG 0 1 20.147
196361927 GT-AG 0 1.000000099473604e-05 577 rna-XM_026655424.1 34880184 3 404778 405354 Terrapene carolina 158814 TAC|GTGAGTCCAG...GGCCCCTCATCC/GGGCCCCTCATC...TGCAG|GAC 0 1 38.828
196361928 GT-AG 0 1.000000099473604e-05 551 rna-XM_026655424.1 34880184 4 404110 404660 Terrapene carolina 158814 GAT|GTGAGTGAAG...GCATCTCTAGCC/CTGGCTCTCACC...CCCAG|GTG 0 1 53.114
196361929 GT-AG 0 1.000000099473604e-05 198 rna-XM_026655424.1 34880184 5 403815 404012 Terrapene carolina 158814 ATG|GTGAGTGGGG...AGCTCCATGTGT/CCAGGAGCAACT...CCCAG|GTG 1 1 64.957
196361930 GC-AG 0 1.000000099473604e-05 1758 rna-XM_026655424.1 34880184 6 402017 403774 Terrapene carolina 158814 AGG|GCTGGACCCC...CGGGTTGTGACT/CGGGTTGTGACT...CCTAG|ATT 2 1 69.841
196361931 GT-AG 0 1.000000099473604e-05 571 rna-XM_026655424.1 34880184 7 401398 401968 Terrapene carolina 158814 CTC|GTCCTTACCC...ACTCGGTTAATG/ACTCGGTTAATG...GTCAG|CAG 2 1 75.702
196361932 GT-AG 0 1.000000099473604e-05 1115 rna-XM_026655424.1 34880184 8 400158 401272 Terrapene carolina 158814 CAG|GTAGGGTGAC...GTCTCCCTCCCC/GGCGAAGTCATT...CATAG|GTC 1 1 90.965

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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]);