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 = 19667978

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Suggested facets: score, length, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
105497543 GT-AG 0 1.215909519919984e-05 136 rna-KI688_000893 19667978 1 3152225 3152360 Linnemannia hyalina 64524 CAA|GTTGCACACT...TGATACTTGATT/CTTTTGTTCACT...AATAG|GCA 0 1 1.011
105497544 GT-AG 0 1.000000099473604e-05 115 rna-KI688_000893 19667978 2 3150439 3150553 Linnemannia hyalina 64524 AAG|GTAAATGCGG...AACATCTCAACT/TCTCAACTAACT...TGTAG|TTC 0 1 22.667
105497545 GT-AG 0 1.000000099473604e-05 92 rna-KI688_000893 19667978 3 3150203 3150294 Linnemannia hyalina 64524 AAG|GTGAGAATAC...TATCCCTGAATG/CTAACGTTTATC...ACTAG|ATT 0 1 24.533
105497546 GT-AG 0 1.000000099473604e-05 108 rna-KI688_000893 19667978 4 3149525 3149632 Linnemannia hyalina 64524 CAG|GTAAATTGCA...ATCTCCTCATTC/CATCTCCTCATT...TACAG|GGT 0 1 31.921
105497547 GT-AG 0 1.000000099473604e-05 92 rna-KI688_000893 19667978 5 3149376 3149467 Linnemannia hyalina 64524 ATG|GTAATTGTTT...TCAATTTTACAT/ATTGTTATCACA...TTTAG|ATC 0 1 32.659
105497548 GT-AG 0 0.000148488600434 105 rna-KI688_000893 19667978 6 3149190 3149294 Linnemannia hyalina 64524 TCT|GTAAGTCATC...TTCATCTTGATA/TTGGTTCTAACC...TGTAG|GCC 0 1 33.709
105497549 GT-AG 0 1.000000099473604e-05 96 rna-KI688_000893 19667978 7 3148963 3149058 Linnemannia hyalina 64524 TGT|GTAAGTGACA...AGCATATTAACG/AGCATATTAACG...TATAG|TAA 2 1 35.407
105497550 GT-AG 0 0.0001040709668268 107 rna-KI688_000893 19667978 8 3146053 3146159 Linnemannia hyalina 64524 ATG|GTAAGTTTAT...TACTTTTTGACT/TACTTTTTGACT...TGTAG|TTG 0 1 71.734

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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]);