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 = 11997988

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Suggested facets: dinucleotide_pair, 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
65073948 GT-AG 0 1.420075319158752e-05 3513 rna-XM_026111239.1 11997988 2 6472391 6475903 Dromaius novaehollandiae 8790 CAG|GTATAAAATG...GTAACCTAATTT/AGTAACCTAATT...TGCAG|GTA 0 1 18.233
65073949 GT-AG 0 8.469627177647576e-05 2037 rna-XM_026111239.1 11997988 3 6470207 6472243 Dromaius novaehollandiae 8790 CAG|GTACTTACGG...TTGATTTTAATT/TTGATTTTAATT...TACAG|ATC 0 1 32.049
65073950 GT-AG 0 1.891326837586092e-05 2811 rna-XM_026111239.1 11997988 4 6467295 6470105 Dromaius novaehollandiae 8790 CAG|GTATGGAGCT...TTTCTTTTACTT/TTGCTTTTTATT...GCCAG|AAA 2 1 41.541
65073951 GT-AG 0 0.0302253967219856 1452 rna-XM_026111239.1 11997988 5 6465700 6467151 Dromaius novaehollandiae 8790 ACA|GTATGTAGTC...AATCTCTTAAAC/ACTATACTAATC...CTCAG|TTG 1 1 54.981
65073952 GT-AG 0 1.000000099473604e-05 1420 rna-XM_026111239.1 11997988 6 6464097 6465516 Dromaius novaehollandiae 8790 AAG|GTGAGAAACT...TGGCTTTTGTCT/ATTGCTGTCACC...TTCAG|CTG 1 1 72.18
65073953 GC-AG 0 1.000000099473604e-05 3127 rna-XM_026111239.1 11997988 7 6460819 6463945 Dromaius novaehollandiae 8790 CAG|GCATGTACAT...ATGTCCTTATTT/AATGTCCTTATT...TACAG|AGA 2 1 86.372
65074180 GT-AG 0 1.000000099473604e-05 2387 rna-XM_026111239.1 11997988 1 6476026 6478412 Dromaius novaehollandiae 8790 AAG|GTTGTCCATT...AATTGCATACCA/TAAAGACTTACG...TGTAG|GTA   0 7.519

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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]);