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 = 7878600

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Suggested facets: dinucleotide_pair, score, length, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
41944566 GT-AG 0 1.000000099473604e-05 452 rna-gnl|WGS:JAHGAV|mRNA7048 7878600 5 26702630 26703081 Chelydra serpentina 8475 AAG|GTGAGGCCCC...TGATCCTTGGCT/ACCAAGTTGATC...TTCAG|TGT 0 1 33.855
41944567 GT-AG 0 1.000000099473604e-05 722 rna-gnl|WGS:JAHGAV|mRNA7048 7878600 6 26703646 26704367 Chelydra serpentina 8475 CAG|GTGAGTGCAG...CTCTCCTTGTGC/CTGCCTGGCACT...AGCAG|GTT 0 1 60.597
41944568 GT-AG 0 1.000000099473604e-05 452 rna-gnl|WGS:JAHGAV|mRNA7048 7878600 7 26704626 26705077 Chelydra serpentina 8475 GAG|GTGAGTAAAG...TCATTCTTGCTC/GTGCATCTCATT...TGCAG|GTT 0 1 72.831
41945704 AC-CC 0 1.5947112520089666e-05 435 rna-gnl|WGS:JAHGAV|mRNA7048 7878600 1 26700490 26700924 Chelydra serpentina 8475 TGG|ACTGTGTTGG...CTGGCTTCAGCC/GCTGGCTTCAGC...CATCC|TCG   0 0.379
41945705 GA-AT 0 1.000000099473604e-05 289 rna-gnl|WGS:JAHGAV|mRNA7048 7878600 2 26700938 26701226 Chelydra serpentina 8475 GGG|GACAGGAAAT...GGCACCTTGCAT/GCACCTTGCATC...GGCAT|TGT   0 0.996
41945706 CC-GC 0 0.0010984718714687 129 rna-gnl|WGS:JAHGAV|mRNA7048 7878600 3 26701273 26701401 Chelydra serpentina 8475 CCT|CCAGCAAAGA...GGCTTCTTTCCC/CAGCTGCTGAGT...CTGGC|CTG   0 3.177
41945707 GT-AG 0 1.000000099473604e-05 552 rna-gnl|WGS:JAHGAV|mRNA7048 7878600 4 26701728 26702279 Chelydra serpentina 8475 CAG|GTCAGTGGCC...GCCTCCTTGACT/GCCTCCTTGACT...CCTAG|CCT   0 18.634

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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]);