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 = 11997963

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Suggested facets: 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
65073734 GT-AG 0 1.2013132466433198e-05 626 rna-XM_026108901.1 11997963 2 5550120 5550745 Dromaius novaehollandiae 8790 CAG|GTAAGCACAG...ACTTTCTTAAAC/TTTATTGTCATA...GGCAG|ACA 2 1 42.966
65073735 GT-AG 0 0.0026433917503379 1043 rna-XM_026108901.1 11997963 3 5550852 5551894 Dromaius novaehollandiae 8790 GCT|GTAGGCATAG...ATGTTTTTGTTT/TTGAAAGTCATG...ACCAG|TCA 0 1 48.349
65073736 GT-AG 0 3.162194092876782e-05 1595 rna-XM_026108901.1 11997963 4 5552034 5553628 Dromaius novaehollandiae 8790 AAG|GTAAATTATA...ATTCTTTTATTC/TATTCTTTTATT...CTAAG|GTG 1 1 55.409
65073737 GT-AG 0 1.000000099473604e-05 652 rna-XM_026108901.1 11997963 5 5553745 5554396 Dromaius novaehollandiae 8790 CTG|GTGAGAAACA...GCTTTCTTACCT/TGCTTTCTTACC...TACAG|TTT 0 1 61.3
65073738 GT-AG 0 1.0929867495532e-05 1084 rna-XM_026108901.1 11997963 6 5554509 5555592 Dromaius novaehollandiae 8790 GAG|GTAAGTACTT...TCTTCCTTATCA/TTATGTTTAACA...TCCAG|AGG 1 1 66.988
65073739 GT-AG 0 3.683943770487302e-05 846 rna-XM_026108901.1 11997963 7 5556083 5556928 Dromaius novaehollandiae 8790 ACT|GTAAGTACTA...TTTTTTTTGTTT/CTGTATTTCAGT...TCAAG|CCG 2 1 91.874
65074160 GT-AG 0 1.1888708132500395e-05 3046 rna-XM_026108901.1 11997963 1 5546744 5549789 Dromaius novaehollandiae 8790 TCT|GTAAGTAGTT...CATGCTTTTGCA/TTGTTACTGACA...TTTAG|ATC   0 27.171

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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]);