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)

6 rows where transcript_id = 26701887

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Suggested facets: score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
148095223 GT-AG 0 1.000000099473604e-05 4019 rna-XM_009481028.1 26701887 1 15878 19896 Pelecanus crispus 36300 TGG|GTGGGGAACT...TGCTGCTGAACA/TTGCTGCTGAAC...TGCAG|ATG 0 1 43.055
148095224 GT-AG 0 1.000000099473604e-05 620 rna-XM_009481028.1 26701887 2 15013 15632 Pelecanus crispus 36300 CAG|GTGAGCCAGC...ACCATCTTGTCT/CAGGCAGCCACC...CCCAG|GCA 2 1 55.166
148095225 GT-AG 0 1.000000099473604e-05 913 rna-XM_009481028.1 26701887 3 13919 14831 Pelecanus crispus 36300 CAT|GTAAGGCACC...CTTTCCTTCCCT/GCTGCTTTCATC...TGCAG|AAG 0 1 64.113
148095226 GT-AG 0 0.000149688154603 157 rna-XM_009481028.1 26701887 4 13653 13809 Pelecanus crispus 36300 CAC|GTATGTAGCT...GCAGCTGTACTC/GCTGTACTCATG...ACCAG|GGG 1 1 69.501
148095227 GT-AG 0 0.0127878487797622 1628 rna-XM_009481028.1 26701887 5 11786 13413 Pelecanus crispus 36300 AAG|GTATACTGAG...ATGTCTTTTTCT/TTTTCTTCCATC...TGCAG|GTC 0 1 81.315
148095228 GT-AG 0 1.000000099473604e-05 888 rna-XM_009481028.1 26701887 6 10711 11598 Pelecanus crispus 36300 AGG|GTGAGTGAGG...TGGGTTTTGTCT/TCGGGTCAAACC...TCCAG|AGT 1 1 90.559

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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]);